Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 40 of 427
Found at i:9908821 original size:15 final size:15
Alignment explanation
Indices: 9908803--9908833 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9908793 TAAAAATATA
9908803 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
9908818 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
9908833 A
1 A
9908834 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:9908967 original size:5 final size:6
Alignment explanation
Indices: 9908949--9908977 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
9908939 CAGTAGTAGT
9908949 AATAAA AATAAA AATAAA AATAAA AATAA
1 AATAAA AATAAA AATAAA AATAAA AATAA
9908978 TAGTAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:9908998 original size:33 final size:33
Alignment explanation
Indices: 9908887--9908998 Score: 84
Period size: 33 Copynumber: 3.3 Consensus size: 33
9908877 ATAATGATAT
*
9908887 ATATATAA-AAAAAGAAATAATAATATGGTAA-AAAA
1 ATAT-TAATAAAAATAAA-AATAATA--GTAATAAAA
* * * *
9908922 TATGTTAATAAAAATAACAGTAGTAGTAATAAAA
1 -ATATTAATAAAAATAAAAATAATAGTAATAAAA
** **
9908956 ATAAAAATAAAAATAAAAATAATAGTAATAATG
1 ATATTAATAAAAATAAAAATAATAGTAATAAAA
9908989 ATATTAATAA
1 ATATTAATAA
9908999 TAGTAATAAA
Statistics
Matches: 59, Mismatches: 15, Indels: 7
0.73 0.19 0.09
Matches are distributed among these distances:
33 37 0.63
34 4 0.07
35 8 0.14
36 10 0.17
ACGTcount: A:0.64, C:0.01, G:0.08, T:0.27
Consensus pattern (33 bp):
ATATTAATAAAAATAAAAATAATAGTAATAAAA
Found at i:9909155 original size:3 final size:3
Alignment explanation
Indices: 9909149--9909353 Score: 109
Period size: 3 Copynumber: 67.7 Consensus size: 3
9909139 ATAGTTGTAG
* * * * * *
9909149 TAA TAA TAA TAG TAA GAA AAA TAG TGA TAA T-A TAA CAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
9909195 CAA -AA TAA TAA TAA TAG TCACG GAGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-A-A TA-A TAA TAA TAA TAA TAA TAA TAA
* *
9909242 TAA TAA TAA TAA TAA TAA TAA TAA T-A TAAA TAA AAA T-A TAAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA T-AA TAA
* * * * * *
9909287 CAA -AA AAA TAG CAA TAG TAA TAA TAA TAA TGA -AA TGAA GGTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA --TAA TAA
*
9909333 TAA TAA TAA TAG TAA CTAA TA
1 TAA TAA TAA TAA TAA -TAA TA
9909354 TGCAAGAAAA
Statistics
Matches: 156, Mismatches: 31, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
2 13 0.08
3 128 0.82
4 11 0.07
5 3 0.02
6 1 0.01
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:9909881 original size:23 final size:26
Alignment explanation
Indices: 9909850--9909907 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
9909840 TTTTTGTTCC
*
9909850 CAAAAAAAAAA-C-CCTCTTGAATTT
1 CAAAAAAAAAATCTCCTCTTGAATCT
*
9909874 CAAAAAAAAAATCTCTTCTTGAATCT
1 CAAAAAAAAAATCTCCTCTTGAATCT
9909900 CAAAAAAA
1 CAAAAAAA
9909908 TTTCTTCTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 11 0.37
25 1 0.03
26 18 0.60
ACGTcount: A:0.53, C:0.19, G:0.03, T:0.24
Consensus pattern (26 bp):
CAAAAAAAAAATCTCCTCTTGAATCT
Found at i:9910129 original size:14 final size:14
Alignment explanation
Indices: 9910106--9910144 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
9910096 GAGATTAAGT
9910106 TTTTTCTTTTTTTGA
1 TTTTT-TTTTTTTGA
9910121 -TTTTTTTTTTTGA
1 TTTTTTTTTTTTGA
9910134 TTTTTTTTTTT
1 TTTTTTTTTTT
9910145 AGGTTGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.05, C:0.03, G:0.05, T:0.87
Consensus pattern (14 bp):
TTTTTTTTTTTTGA
Found at i:9910130 original size:13 final size:13
Alignment explanation
Indices: 9910107--9910144 Score: 67
Period size: 13 Copynumber: 2.8 Consensus size: 13
9910097 AGATTAAGTT
9910107 TTTTCTTTTTTTGA
1 TTTT-TTTTTTTGA
9910121 TTTTTTTTTTTGA
1 TTTTTTTTTTTGA
9910134 TTTTTTTTTTT
1 TTTTTTTTTTT
9910145 AGGTTGGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.05, C:0.03, G:0.05, T:0.87
Consensus pattern (13 bp):
TTTTTTTTTTTGA
Found at i:9912247 original size:35 final size:35
Alignment explanation
Indices: 9912207--9912275 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
9912197 AATTTTAAAA
9912207 AATGTTGTAAAA-TTATTTTTTTGTATTTACAATAT
1 AATGTTGTAAAAGTTA-TTTTTTGTATTTACAATAT
*
9912242 AATGTTTTAAAAGTTATTTTTTGTATTTACAATA
1 AATGTTGTAAAAGTTATTTTTTGTATTTACAATA
9912276 ATTTTTTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 29 0.91
36 3 0.09
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.54
Consensus pattern (35 bp):
AATGTTGTAAAAGTTATTTTTTGTATTTACAATAT
Found at i:9914273 original size:2 final size:2
Alignment explanation
Indices: 9914266--9914299 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9914256 TAACAGATAA
9914266 CT 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 CT
9914300 TTCACCTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9917462 original size:2 final size:2
Alignment explanation
Indices: 9917455--9917482 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9917445 AATTTAGCAC
9917455 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9917483 GAAGGACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9918999 original size:10 final size:10
Alignment explanation
Indices: 9918980--9919016 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
9918970 TTAAATTCTA
9918980 AAAGATAAAT
1 AAAGATAAAT
9918990 ACAA-ATAAAT
1 A-AAGATAAAT
9919000 AAAGATAAAT
1 AAAGATAAAT
9919010 AAAGATA
1 AAAGATA
9919017 TATGCTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.70, C:0.03, G:0.08, T:0.19
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:9920856 original size:21 final size:21
Alignment explanation
Indices: 9920807--9920865 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
9920797 ATAATAAATT
*
9920807 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
9920827 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
9920849 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
9920866 TTCTTAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:9920942 original size:15 final size:16
Alignment explanation
Indices: 9920912--9920944 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9920902 AAATATTTAT
9920912 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
9920929 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
9920944 A
1 A
9920945 AAAATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:9925167 original size:210 final size:210
Alignment explanation
Indices: 9924799--9925204 Score: 553
Period size: 210 Copynumber: 1.9 Consensus size: 210
9924789 AGGCTTAAGC
** * *
9924799 TTTTGAATTTAGGAGGCTGCAAAAGTCTGAGGAGTTTTCCAACCAGAATTGGAATGGAATCCCTT
1 TTTTGAATTTAAAAGACTGCAAAAGTCTGAGGAGTTTTCCAACCAAAATTGGAATGGAATCCCTT
* * * *
9924864 GAAATGTTAACTCTTTCAGGTTGCTCAAAACTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
66 GAAAAGTTAACTCTTTCAGGTTGCTCAAAACTTAAAAGCGTTCCAGAGATTGATGGAAAAATGGA
** *** * * *
9924929 ATGTTTGTTGGAGGTTTGTTTTGATGGGACAAACATTAAAGAGCTACCT-TCTTCAATCGGAAAT
131 ATGCCTGCAAGAGCTTTATTTAGATGGGACAAACATTAAAGAGCTACCTAT-TTCAATCGGAAAT
9924993 CTCAGAAGACTTGAAG
195 CTCAGAAGACTTGAAG
* *
9925009 TTTTGAATTTAAAAGACTGTAAAAGTCTGAGGAGTTTTCCAACCAAAATTGGAATGGAATCTCTT
1 TTTTGAATTTAAAAGACTGCAAAAGTCTGAGGAGTTTTCCAACCAAAATTGGAATGGAATCCCTT
* * * * *
9925074 GAAAAGTTAATTCTTTCAGGTTGTTCCAATCTTAAAAGGGTTCCAGAGATTGATGGAAAAATGGA
66 GAAAAGTTAACTCTTTCAGGTTGCTCAAAACTTAAAAGCGTTCCAGAGATTGATGGAAAAATGGA
*** *
9925139 ATGCCTGCAAGAGCTTTATTTAGATGGGACGGGCATTAAAGAGCTACCTATTTCAATTGGAAATC
131 ATGCCTGCAAGAGCTTTATTTAGATGGGACAAACATTAAAGAGCTACCTATTTCAATCGGAAATC
9925204 T
196 T
9925205 GAGCAGTCTT
Statistics
Matches: 168, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
210 167 0.99
211 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.31
Consensus pattern (210 bp):
TTTTGAATTTAAAAGACTGCAAAAGTCTGAGGAGTTTTCCAACCAAAATTGGAATGGAATCCCTT
GAAAAGTTAACTCTTTCAGGTTGCTCAAAACTTAAAAGCGTTCCAGAGATTGATGGAAAAATGGA
ATGCCTGCAAGAGCTTTATTTAGATGGGACAAACATTAAAGAGCTACCTATTTCAATCGGAAATC
TCAGAAGACTTGAAG
Found at i:9929432 original size:84 final size:84
Alignment explanation
Indices: 9929291--9929458 Score: 284
Period size: 84 Copynumber: 2.0 Consensus size: 84
9929281 TCAAATCCAA
*
9929291 AGGAATTGCATCACCTTCAAAGCATTTTGGAATCAAGCAACAAATTTGATCCTTAAACAAAACTC
1 AGGAATTGCATCACCTTCAAACCATTTTGGAATCAAGCAACAAATTTGATCCTTAAACAAAACTC
9929356 CATTGAGATTGACAAAAGC
66 CATTGAGATTGACAAAAGC
** *
9929375 AGGAATTGGGTCACCTTCAAACCACTTTT-GAATCAAGCAATAAATTTGATCCTTAAACAAAACT
1 AGGAATTGCATCACCTTCAAACCA-TTTTGGAATCAAGCAACAAATTTGATCCTTAAACAAAACT
9929439 CCATTGAGATTGACAAAAGC
65 CCATTGAGATTGACAAAAGC
9929459 GAGCATGGAA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
84 75 0.95
85 4 0.05
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (84 bp):
AGGAATTGCATCACCTTCAAACCATTTTGGAATCAAGCAACAAATTTGATCCTTAAACAAAACTC
CATTGAGATTGACAAAAGC
Found at i:9930417 original size:18 final size:18
Alignment explanation
Indices: 9930394--9930435 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
9930384 AACGTACATC
*
9930394 TAATTATTTTTATTTCAT
1 TAATTATATTTATTTCAT
*
9930412 TAATTATATTTATTTTAT
1 TAATTATATTTATTTCAT
9930430 TAATTA
1 TAATTA
9930436 CTGTAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TAATTATATTTATTTCAT
Found at i:9933041 original size:203 final size:203
Alignment explanation
Indices: 9932686--9933098 Score: 772
Period size: 203 Copynumber: 2.0 Consensus size: 203
9932676 AATCAAGAAG
* *
9932686 ATTCCAATCGAAGTGAGTCAGAATGTGGGCAAGTGAGAGCTGTGACTTCTTGCCAGTGAGATGTA
1 ATTCCAATCGAAGTGAGTCAGAATGTAGGCAAGTGAAAGCTGTGACTTCTTGCCAGTGAGATGTA
9932751 CCAACGAGTGGGATAGTTCGAGCTAAGAGGCGAAAAAAATAGAGGCAAAAGTTCCAAAGGAAGGG
66 CCAACGAGTGGGATAGTTCGAGCTAAGAGGCGAAAAAAATAGAGGCAAAAGTTCCAAAGGAAGGG
9932816 ACAACCTGATATGAGACTAGTCTGGAAAAAGCCAAAGCAATAAGAAAGATTCAAGGCAAATCAAG
131 ACAACCTGATATGAGACTAGTCTGGAAAAAGCCAAAGCAATAAGAAAGATTCAAGGCAAATCAAG
9932881 TAAATGTC
196 TAAATGTC
9932889 ATTCCAATCGAAGTGAGTCAGAATGTAGGCAAGTGAAAGCTGTGACTTCTTGCCAGTGAGATGTA
1 ATTCCAATCGAAGTGAGTCAGAATGTAGGCAAGTGAAAGCTGTGACTTCTTGCCAGTGAGATGTA
* *
9932954 CCAACGAGTGGGATGGTTCGAGCTAAGAGGCGAAAAAAATCGAGGCAAAAGTTCCAAAGGAAGGG
66 CCAACGAGTGGGATAGTTCGAGCTAAGAGGCGAAAAAAATAGAGGCAAAAGTTCCAAAGGAAGGG
*
9933019 ACAACCTGATATGAGGCTAGTCTGGAAAAAGCCAAAGCAATAAGAAAGATTCAAGGCAAATCAAG
131 ACAACCTGATATGAGACTAGTCTGGAAAAAGCCAAAGCAATAAGAAAGATTCAAGGCAAATCAAG
*
9933084 TAAGTGTC
196 TAAATGTC
9933092 ATTCCAA
1 ATTCCAA
9933099 AGGCGCAATA
Statistics
Matches: 204, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
203 204 1.00
ACGTcount: A:0.38, C:0.16, G:0.27, T:0.19
Consensus pattern (203 bp):
ATTCCAATCGAAGTGAGTCAGAATGTAGGCAAGTGAAAGCTGTGACTTCTTGCCAGTGAGATGTA
CCAACGAGTGGGATAGTTCGAGCTAAGAGGCGAAAAAAATAGAGGCAAAAGTTCCAAAGGAAGGG
ACAACCTGATATGAGACTAGTCTGGAAAAAGCCAAAGCAATAAGAAAGATTCAAGGCAAATCAAG
TAAATGTC
Found at i:9938090 original size:26 final size:25
Alignment explanation
Indices: 9938061--9938110 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
9938051 ACCATTTCAC
* *
9938061 TATTATATTACTACTTATTTTATTGG
1 TATTATATAACT-CCTATTTTATTGG
*
9938087 TATTGTATAACTCCTATTTTATTG
1 TATTATATAACTCCTATTTTATTG
9938111 TTAATTTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.26, C:0.10, G:0.08, T:0.56
Consensus pattern (25 bp):
TATTATATAACTCCTATTTTATTGG
Found at i:9942465 original size:40 final size:40
Alignment explanation
Indices: 9942384--9942524 Score: 176
Period size: 40 Copynumber: 3.5 Consensus size: 40
9942374 ACCCAAGTAT
* * * *
9942384 CTTCGGGATTTAG-CCGGATATAGCAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAACGC
* * **
9942423 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAACGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAACGC
* * *
9942463 CTTCGGGACTTAGCCCAGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAACGC
9942503 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
9942525 CATCCGAATA
Statistics
Matches: 85, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 11 0.13
40 74 0.87
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAACGC
Found at i:9945051 original size:3 final size:3
Alignment explanation
Indices: 9945043--9945073 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
9945033 AGTAAAAGGT
9945043 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
9945074 GCAAATAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9945153 original size:3 final size:3
Alignment explanation
Indices: 9945147--9945175 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9945137 GATGATGATG
9945147 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
9945176 TGTCGAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:9946107 original size:115 final size:115
Alignment explanation
Indices: 9945861--9946107 Score: 284
Period size: 115 Copynumber: 2.1 Consensus size: 115
9945851 ATATTCAAAT
* * *
9945861 ACTTAAATCGAATAAAAAACGAAACCCAGTACGGTAGGGGACGTTTTTTAAAACGATTAAGTATA
1 ACTTAAATCGAATAAAAAAAGAAACCCAATACGGTAGGGCACGTTTTTTAAAACGATTAAGTATA
* * * * * * *
9945926 GAAAATTGTCTTTATTAAAAACTATTTGGGAACAAAACGTTGAATAAAAT
66 GAAAATTATCTTTATTAAAAACAAGTTGAGAACAAAACATGGAATAAAAA
9945976 ACTTAAATCGAATAAAAAAAG-AACCCAATACGGTAGGGCATC-TTTTTTAAAACGATTAAGTAT
1 ACTTAAATCGAATAAAAAAAGAAACCCAATACGGTAGGGCA-CGTTTTTTAAAACGATTAAGTAT
* * * * **
9946039 AGAAAATTATTTTTATGTTAAAACAAGTTGAGAATACATTATGGAATAAAAGA
65 AGAAAATTATCTTTAT-TAAAAACAAGTTGAGAACAAAACATGGAATAAAA-A
* *
9946092 AC-TAAAACGATTAAAA
1 ACTTAAATCGAATAAAA
9946108 TTTGGGGAGG
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
114 52 0.47
115 57 0.51
116 2 0.02
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.28
Consensus pattern (115 bp):
ACTTAAATCGAATAAAAAAAGAAACCCAATACGGTAGGGCACGTTTTTTAAAACGATTAAGTATA
GAAAATTATCTTTATTAAAAACAAGTTGAGAACAAAACATGGAATAAAAA
Found at i:9947085 original size:17 final size:18
Alignment explanation
Indices: 9947065--9947098 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9947055 ACTAAAAGAA
9947065 TAATC-TATAAATAAAAC
1 TAATCATATAAATAAAAC
*
9947082 TAATCATTTAAATAAAA
1 TAATCATATAAATAAAA
9947099 TTATGGGCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (18 bp):
TAATCATATAAATAAAAC
Found at i:9948004 original size:3 final size:3
Alignment explanation
Indices: 9947996--9948037 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
9947986 TGGTACCCAC
9947996 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
9948038 GGTAAAATAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9949081 original size:25 final size:26
Alignment explanation
Indices: 9949053--9949101 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
9949043 CTAAGGTAGG
*
9949053 TTGGGCTTAG-TTGGTTTAATTGGTA
1 TTGGGCTTAGTTTAGTTTAATTGGTA
*
9949078 TTGGGTTTAGTTTAGTTTAATTGG
1 TTGGGCTTAGTTTAGTTTAATTGG
9949102 GTTGAAGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.16, C:0.02, G:0.31, T:0.51
Consensus pattern (26 bp):
TTGGGCTTAGTTTAGTTTAATTGGTA
Found at i:9949566 original size:17 final size:17
Alignment explanation
Indices: 9949508--9949569 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
9949498 AATTCAATTT
*
9949508 ATATCAATATTTTAATA
1 ATATAAATATTTTAATA
*
9949525 ATA-AATATATATT-ATA
1 ATATAA-ATATTTTAATA
*
9949541 GTTTATAAATATTTTAATA
1 --ATATAAATATTTTAATA
9949560 ATATAAATAT
1 ATATAAATAT
9949570 AAGTATTTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
16 4 0.11
17 18 0.51
18 8 0.23
19 5 0.14
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (17 bp):
ATATAAATATTTTAATA
Found at i:9951480 original size:18 final size:18
Alignment explanation
Indices: 9951457--9951491 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9951447 ATTAAAATTT
9951457 AATTTT-ATTATTATATTA
1 AATTTTAATT-TTATATTA
9951475 AATTTTAATTTTATATT
1 AATTTTAATTTTATATT
9951492 TTTTTAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
AATTTTAATTTTATATTA
Found at i:9953595 original size:42 final size:41
Alignment explanation
Indices: 9953510--9953596 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 41
9953500 TAGTTCAATC
* *
9953510 ACTTGACACTATTAATTATATTGATTAAAATATTAACATAA
1 ACTTGACACTAATAATTATATTGATTAAAATATTAACAGAA
* * * *
9953551 ACTTTACACTAATAATTATTTTGGTTTTAAATATTAACAGAA
1 ACTTGACACTAATAATTATATT-GATTAAAATATTAACAGAA
9953593 ACTT
1 ACTT
9953597 CGAAAAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 19 0.49
42 20 0.51
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (41 bp):
ACTTGACACTAATAATTATATTGATTAAAATATTAACAGAA
Found at i:9954333 original size:17 final size:17
Alignment explanation
Indices: 9954311--9954354 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
9954301 ATAATTTATT
9954311 TTTAAAATCATA-AAAAA
1 TTTAAAAT-ATATAAAAA
*
9954328 TTTAAAATATATAATAA
1 TTTAAAATATATAAAAA
9954345 TTATAAAATA
1 TT-TAAAATA
9954355 ATAGAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 3 0.12
17 14 0.58
18 7 0.29
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
TTTAAAATATATAAAAA
Found at i:9959163 original size:43 final size:44
Alignment explanation
Indices: 9959115--9959207 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 44
9959105 TCCTAATTGG
9959115 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* * *
9959158 GAAAATAGTTCTCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
9959202 -AAAATA
1 GAAAATA
9959208 TTTCTAGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:9959251 original size:19 final size:18
Alignment explanation
Indices: 9959229--9959268 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
9959219 TGAATAAAAC
9959229 TTATCTACCCAAATAAGAT
1 TTATCTACCCAAATAA-AT
*
9959248 TTATCTACCTAAATAAAT
1 TTATCTACCCAAATAAAT
9959266 TTA
1 TTA
9959269 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (18 bp):
TTATCTACCCAAATAAAT
Found at i:9959546 original size:22 final size:23
Alignment explanation
Indices: 9959521--9959566 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
9959511 CAACCAAATC
9959521 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
9959543 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
9959566 A
1 A
9959567 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:9959572 original size:23 final size:23
Alignment explanation
Indices: 9959528--9959572 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9959518 ATCAATTCAA
*
9959528 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
9959551 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
9959573 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:9966303 original size:73 final size:73
Alignment explanation
Indices: 9966218--9966360 Score: 286
Period size: 73 Copynumber: 2.0 Consensus size: 73
9966208 CTTCTTTTTC
9966218 CCCTTGCCTAGCTTTCCACAGTTTTATTTTTAACTCAAAATTCTGTGAAGCGTTTTCTAAATCTG
1 CCCTTGCCTAGCTTTCCACAGTTTTATTTTTAACTCAAAATTCTGTGAAGCGTTTTCTAAATCTG
9966283 AATAGACA
66 AATAGACA
9966291 CCCTTGCCTAGCTTTCCACAGTTTTATTTTTAACTCAAAATTCTGTGAAGCGTTTTCTAAATCTG
1 CCCTTGCCTAGCTTTCCACAGTTTTATTTTTAACTCAAAATTCTGTGAAGCGTTTTCTAAATCTG
9966356 AATAG
66 AATAG
9966361 GTGTCTTTCA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.39
Consensus pattern (73 bp):
CCCTTGCCTAGCTTTCCACAGTTTTATTTTTAACTCAAAATTCTGTGAAGCGTTTTCTAAATCTG
AATAGACA
Found at i:9966943 original size:43 final size:44
Alignment explanation
Indices: 9966882--9966979 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 44
9966872 TCCTAATTGG
*
9966882 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCTCTTATTCTAATAAACTACTAAAACATAAAATA
* *
9966925 GAAAATAGTTCTCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCTCTTATTCTAATAAACTACTAAAACATAAAATA
*
9966969 -AAAATATTTCT
1 GAAAATAGTTCT
9966980 AGAATATGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 49 0.98
44 1 0.02
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (44 bp):
GAAAATAGTTCTCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:9967018 original size:19 final size:18
Alignment explanation
Indices: 9966996--9967035 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
9966986 TGAATAAAAC
9966996 TTATCTACCCAAATAAGAT
1 TTATCTACCCAAATAA-AT
*
9967015 TTATCTACCTAAATAAAT
1 TTATCTACCCAAATAAAT
9967033 TTA
1 TTA
9967036 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (18 bp):
TTATCTACCCAAATAAAT
Found at i:9972600 original size:23 final size:23
Alignment explanation
Indices: 9972574--9972619 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
9972564 ATGTAACATA
9972574 GAAATTACTTTGTATATGTTTGT
1 GAAATTACTTTGTATATGTTTGT
9972597 GAAATTACTTTGTATATGTTTGT
1 GAAATTACTTTGTATATGTTTGT
9972620 AAGTATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.52
Consensus pattern (23 bp):
GAAATTACTTTGTATATGTTTGT
Found at i:9975612 original size:3 final size:3
Alignment explanation
Indices: 9975604--9975635 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
9975594 TCCTTCCCCA
9975604 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
9975636 GATATTGATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:9979612 original size:6 final size:6
Alignment explanation
Indices: 9979601--9979626 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9979591 GACCCCATAG
9979601 GCTTTC GCTTTC GCTTTC GCTTTC GC
1 GCTTTC GCTTTC GCTTTC GCTTTC GC
9979627 GTCTCTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.35, G:0.19, T:0.46
Consensus pattern (6 bp):
GCTTTC
Found at i:9984352 original size:79 final size:79
Alignment explanation
Indices: 9984222--9984384 Score: 319
Period size: 79 Copynumber: 2.1 Consensus size: 79
9984212 TCTCTTCTCC
9984222 TTAG-TTTTTTGCTGCCAAAACCCAACAAGATCAGTTTCCACTGTGACATGAAAGTGACACCATA
1 TTAGTTTTTTTGCTGCCAAAACCCAACAAGATCAGTTTCCACTGTGACATGAAAGTGACACCATA
9984286 CCAGATGATGATCA
66 CCAGATGATGATCA
9984300 TTAGTTTTTTTGCTGCCAAAACCCAACAAGATCAGTTTCCACTGTGACATGAAAGTGACACCATA
1 TTAGTTTTTTTGCTGCCAAAACCCAACAAGATCAGTTTCCACTGTGACATGAAAGTGACACCATA
9984365 CCAGATGATGATCA
66 CCAGATGATGATCA
9984379 TTAGTT
1 TTAGTT
9984385 GTAGAAAAAG
Statistics
Matches: 84, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
78 4 0.05
79 80 0.95
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.29
Consensus pattern (79 bp):
TTAGTTTTTTTGCTGCCAAAACCCAACAAGATCAGTTTCCACTGTGACATGAAAGTGACACCATA
CCAGATGATGATCA
Found at i:9987861 original size:16 final size:15
Alignment explanation
Indices: 9987834--9987884 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
9987824 ATTTTTTTTC
9987834 GAAATG-ATTCGAGT
1 GAAATGAATTCGAGT
9987848 GAAATGAAATTCGAGT
1 GAAATG-AATTCGAGT
9987864 CG-AATCGAA-TCGAGT
1 -GAAAT-GAATTCGAGT
9987879 GAAATG
1 GAAATG
9987885 TTGGAGTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
14 8 0.25
15 9 0.28
16 13 0.41
17 2 0.06
ACGTcount: A:0.39, C:0.10, G:0.27, T:0.24
Consensus pattern (15 bp):
GAAATGAATTCGAGT
Found at i:9988365 original size:14 final size:14
Alignment explanation
Indices: 9988346--9988375 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9988336 TGACTCAAAT
9988346 AATTCGAATAACTC
1 AATTCGAATAACTC
*
9988360 AATTCGATTAACTC
1 AATTCGAATAACTC
9988374 AA
1 AA
9988376 ATTTTTTTCA
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:0.07, T:0.30
Consensus pattern (14 bp):
AATTCGAATAACTC
Found at i:9989839 original size:26 final size:24
Alignment explanation
Indices: 9989810--9989858 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
9989800 TTAAATAAAA
* *
9989810 ATTTTAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAA-AAA-CAAATAC
9989836 ATTTAAAAACATAAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
9989859 AAAAATGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAC
Found at i:9991331 original size:12 final size:12
Alignment explanation
Indices: 9991316--9991374 Score: 82
Period size: 12 Copynumber: 4.9 Consensus size: 12
9991306 CATAAGTAAA
9991316 TAACTAAATAAC
1 TAACTAAATAAC
*
9991328 TAACTAACTAAC
1 TAACTAAATAAC
*
9991340 TAACTAACTAAC
1 TAACTAAATAAC
*
9991352 TAACTAAATAAA
1 TAACTAAATAAC
*
9991364 TAAATAAATAA
1 TAACTAAATAA
9991375 AAATAAAACA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.25
Consensus pattern (12 bp):
TAACTAAATAAC
Found at i:9991333 original size:4 final size:4
Alignment explanation
Indices: 9991316--9991358 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
9991306 CATAAGTAAA
*
9991316 TAAC TAAA TAAC TAAC TAAC TAAC TAAC TAAC TAAC TAAC TAA
1 TAAC TAAC TAAC TAAC TAAC TAAC TAAC TAAC TAAC TAAC TAA
9991359 ATAAATAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAC
Found at i:9991375 original size:8 final size:8
Alignment explanation
Indices: 9991307--9991374 Score: 73
Period size: 8 Copynumber: 8.5 Consensus size: 8
9991297 GATCGAATAC
*
9991307 ATAAGTAA
1 ATAACTAA
9991315 ATAACTAA
1 ATAACTAA
9991323 ATAACTAA
1 ATAACTAA
*
9991331 CTAACTAA
1 ATAACTAA
*
9991339 CTAACTAA
1 ATAACTAA
*
9991347 CTAACTAA
1 ATAACTAA
* *
9991355 CTAAATAA
1 ATAACTAA
*
9991363 ATAAATAA
1 ATAACTAA
9991371 ATAA
1 ATAA
9991375 AAATAAAACA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 56 1.00
ACGTcount: A:0.60, C:0.13, G:0.01, T:0.25
Consensus pattern (8 bp):
ATAACTAA
Found at i:9992132 original size:22 final size:22
Alignment explanation
Indices: 9992085--9992148 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
9992075 TACACATACT
*
9992085 ATATATAAAAAATATATGCGTA
1 ATATATAAAAAATATATGCATA
* *
9992107 ATATATTAAAAATATA-GACATG
1 ATATATAAAAAATATATG-CATA
9992129 ATATGCATAAACAAATATAT
1 ATAT--ATAAA-AAATATAT
9992149 ATGTATGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 1 0.03
22 21 0.64
24 4 0.12
25 7 0.21
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (22 bp):
ATATATAAAAAATATATGCATA
Found at i:9997083 original size:30 final size:30
Alignment explanation
Indices: 9997049--9997106 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
9997039 AATTTTTATT
*
9997049 AATTCTTTTGATTTTTTATAAAAGTATGTG
1 AATTCTTTTGAATTTTTATAAAAGTATGTG
9997079 AATTCTTTTGAATTTTTATAAAAGTATG
1 AATTCTTTTGAATTTTTATAAAAGTATG
9997107 CAGATTATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (30 bp):
AATTCTTTTGAATTTTTATAAAAGTATGTG
Found at i:10001273 original size:54 final size:54
Alignment explanation
Indices: 10001211--10001313 Score: 206
Period size: 54 Copynumber: 1.9 Consensus size: 54
10001201 ATTTATAAAT
10001211 AATAAATAATAGTTATCATTATAATAAATAACAACTAAGAAATAATAAATTATA
1 AATAAATAATAGTTATCATTATAATAAATAACAACTAAGAAATAATAAATTATA
10001265 AATAAATAATAGTTATCATTATAATAAATAACAACTAAGAAATAATAAA
1 AATAAATAATAGTTATCATTATAATAAATAACAACTAAGAAATAATAAA
10001314 AAGAACATTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (54 bp):
AATAAATAATAGTTATCATTATAATAAATAACAACTAAGAAATAATAAATTATA
Found at i:10003116 original size:43 final size:42
Alignment explanation
Indices: 10003070--10003230 Score: 126
Period size: 43 Copynumber: 3.8 Consensus size: 42
10003060 CATGTTTGGA
*
10003070 AAAAAAACGCTGCTAAAAGTAATGACTTTTAGCAGCGTTTGT
1 AAAAAAACGCCGCTAAAAGTAATGACTTTTAGCAGCGTTTGT
* * ** *
10003112 AAAAAAGCGCCGCTAAAAGTCATGGTTTTTAGCGGCGTTTGTT
1 AAAAAAACGCCGCTAAAAGTAATGACTTTTAGCAGCGTTTG-T
*** * * **
10003155 GGGAAAGCGCCGCTAAAAGTCAA-GGCTTTTAGTGGCGTTTGT
1 AAAAAAACGCCGCTAAAAGT-AATGACTTTTAGCAGCGTTTGT
* * * * *
10003197 GAGAAAAGCGACACTAAAAGTAATGGCTTTTAGC
1 -AAAAAAACGCCGCTAAAAGTAATGACTTTTAGC
10003231 GGCATTTTTT
Statistics
Matches: 98, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 38 0.39
43 59 0.60
44 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAAGTAATGACTTTTAGCAGCGTTTGT
Found at i:10003252 original size:86 final size:84
Alignment explanation
Indices: 10003074--10003252 Score: 207
Period size: 86 Copynumber: 2.1 Consensus size: 84
10003064 TTTGGAAAAA
* * * * *
10003074 AAACGCTGCTAAAAGTAATGACTTTTAGCAGCGTTTGTAAAAAAGCGCCGCTAAAAGTCATGGTT
1 AAACGCCGCTAAAAGTAATGACTTTTAGCAGCGTTTGTAAAAAAGCGACACTAAAAGTAATGGCT
*
10003139 TTTAGCGGCGTTTGTTGGG
66 TTTAGCGGCGTTTGTTGGC
* ** *
10003158 AAAGCGCCGCTAAAAGTCAA-GGCTTTTAGTGGCGTTTGTGAGAAAAGCGACACTAAAAGTAATG
1 AAA-CGCCGCTAAAAGT-AATGACTTTTAGCAGCGTTTGT-AAAAAAGCGACACTAAAAGTAATG
* *
10003222 GCTTTTAGCGGCATTTTTTTGGC
63 GCTTTTAGCGGC-GTTTGTTGGC
10003245 AAACGCCG
1 AAACGCCG
10003253 GTAATTTTGG
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
84 3 0.04
85 28 0.35
86 38 0.48
87 10 0.13
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (84 bp):
AAACGCCGCTAAAAGTAATGACTTTTAGCAGCGTTTGTAAAAAAGCGACACTAAAAGTAATGGCT
TTTAGCGGCGTTTGTTGGC
Found at i:10003345 original size:31 final size:30
Alignment explanation
Indices: 10003310--10003376 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
10003300 CTTCCTGCAT
10003310 TAAAATCCA-AATAAATACAACAAATATAGCA
1 TAAAATCCACAA-AAA-ACAACAAATATAGCA
* * *
10003341 TAAAATGCAGCAAAAAACAGCAAATTTAGCA
1 TAAAATCCA-CAAAAAACAACAAATATAGCA
10003372 TAAAA
1 TAAAA
10003377 AATACAACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 26 0.84
32 3 0.10
33 2 0.06
ACGTcount: A:0.60, C:0.15, G:0.07, T:0.18
Consensus pattern (30 bp):
TAAAATCCACAAAAAACAACAAATATAGCA
Found at i:10003650 original size:21 final size:22
Alignment explanation
Indices: 10003624--10003696 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 22
10003614 TACTGCCATA
* *
10003624 GCTGCTGCCT-TTGCCTCTCTC
1 GCTGCTGCCTGCTGCCTCCCTC
*
10003645 GCTGCTG-CTGCTGCCTCCCTT
1 GCTGCTGCCTGCTGCCTCCCTC
10003666 GCTGCTGCC-GCTGCCTCCCTC
1 GCTGCTGCCTGCTGCCTCCCTC
* *
10003687 TCTGTTGCCT
1 GCTGCTGCCT
10003697 CCGCTCTAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 2 0.05
21 40 0.93
22 1 0.02
ACGTcount: A:0.00, C:0.44, G:0.22, T:0.34
Consensus pattern (22 bp):
GCTGCTGCCTGCTGCCTCCCTC
Found at i:10004136 original size:13 final size:14
Alignment explanation
Indices: 10004111--10004139 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10004101 TGATGAATTG
10004111 AATTAAACAATTAT
1 AATTAAACAATTAT
10004125 AATTAAAC-ATTAT
1 AATTAAACAATTAT
10004138 AA
1 AA
10004140 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:10007471 original size:12 final size:12
Alignment explanation
Indices: 10007456--10007481 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10007446 ATCATCCTCT
10007456 TCATCAGATTCA
1 TCATCAGATTCA
10007468 TCATCAGATTCA
1 TCATCAGATTCA
10007480 TC
1 TC
10007482 CCTCGATTGT
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:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:10009287 original size:9 final size:9
Alignment explanation
Indices: 10009266--10009587 Score: 108
Period size: 9 Copynumber: 37.0 Consensus size: 9
10009256 TATGTATTAC
*
10009266 GTAAGTTAA
1 GTAAGTTAT
10009275 GTAAGCTT-T
1 GTAAG-TTAT
10009284 GTAAGTTAT
1 GTAAGTTAT
10009293 GTAAGTTAT
1 GTAAGTTAT
* *
10009302 GTTA-TGAT
1 GTAAGTTAT
* *
10009310 ATACATTTAT
1 GTA-AGTTAT
**
10009320 GTAAAATAT
1 GTAAGTTAT
*
10009329 GTAAGTAAT
1 GTAAGTTAT
* *
10009338 GATATGATAT
1 G-TAAGTTAT
* *
10009348 AT-ATTTAT
1 GTAAGTTAT
10009356 GT-A-TTAT
1 GTAAGTTAT
*
10009363 GTAAGTTGT
1 GTAAGTTAT
10009372 GTAAGTTAT
1 GTAAGTTAT
*
10009381 G-ATA-TGAT
1 GTA-AGTTAT
* **
10009389 ATATTTTAT
1 GTAAGTTAT
10009398 GT-A-TTAT
1 GTAAGTTAT
*
10009405 GTAAGGTAT
1 GTAAGTTAT
*
10009414 ATAAGTTAT
1 GTAAGTTAT
10009423 GTAAGTTAT
1 GTAAGTTAT
*
10009432 -TATA-TGAT
1 GTA-AGTTAT
* *
10009440 ATATATTTAT
1 GTA-AGTTAT
10009450 GT-A-TTAT
1 GTAAGTTAT
*
10009457 GTAAGTTTT
1 GTAAGTTAT
10009466 GTAAGTTAT
1 GTAAGTTAT
10009475 GTAAGTTAT
1 GTAAGTTAT
*
10009484 -TATA-TGAT
1 GTA-AGTTAT
* *
10009492 ATATATTTAT
1 GTA-AGTTAT
10009502 GT-A-TTAT
1 GTAAGTTAT
*
10009509 GTAAGTTTT
1 GTAAGTTAT
10009518 GTAAGTTAT
1 GTAAGTTAT
*
10009527 GTAAATTAT
1 GTAAGTTAT
* *
10009536 GATATGATAT
1 G-TAAGTTAT
* *
10009546 AT-ATTTAT
1 GTAAGTTAT
*
10009554 GT-A-TTTT
1 GTAAGTTAT
*
10009561 GTAAGGTAT
1 GTAAGTTAT
*
10009570 ATAAGTTAT
1 GTAAGTTAT
10009579 GTAAGTTAT
1 GTAAGTTAT
10009588 TATATGATAT
Statistics
Matches: 231, Mismatches: 57, Indels: 50
0.68 0.17 0.15
Matches are distributed among these distances:
7 29 0.13
8 37 0.16
9 140 0.61
10 25 0.11
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.48
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:10009471 original size:52 final size:52
Alignment explanation
Indices: 10009362--10009641 Score: 391
Period size: 52 Copynumber: 5.3 Consensus size: 52
10009352 TTATGTATTA
* * * *
10009362 TGTAAGTTGTGTAAGTTATGATATGATATAT-TTTATGTATTATGTAAGGTA
1 TGTAAGTTATGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTT
*
10009413 TATAAGTTATGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTT
1 TGTAAGTTATGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTT
10009465 TGTAAGTTATGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTT
1 TGTAAGTTATGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTT
* * * * *
10009517 TGTAAGTTATGTAAATTATGATATGATATATATTTATGTATTTTGTAAGGTA
1 TGTAAGTTATGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTT
* * *
10009569 TATAAGTTATGTAAGTTATTATATGATATATATTTATGATATATATTTATGTATT
1 TGTAAGTTATGTAAGTTATTATATGATATATATTTATG-TAT-TATGTAAGT-TT
*
10009624 ATGTAAGTTTTGTAAGTT
1 -TGTAAGTTATGTAAGTT
10009642 GTGTAAGTTA
Statistics
Matches: 203, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
51 28 0.14
52 151 0.74
53 3 0.01
54 5 0.02
55 1 0.00
56 15 0.07
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (52 bp):
TGTAAGTTATGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTT
Found at i:10009592 original size:43 final size:45
Alignment explanation
Indices: 10009505--10009592 Score: 101
Period size: 43 Copynumber: 2.0 Consensus size: 45
10009495 TATTTATGTA
* * *
10009505 TTATGTAAGTTTTGTAAGTTATGTAAATTATGATATGATATATAT
1 TTATGTAAGTTTTGTAAGGTATATAAATTATGATAAGATATATAT
* *
10009550 TTATGT-A-TTTTGTAAGGTATATAAGTTATG-TAAGTTATTATAT
1 TTATGTAAGTTTTGTAAGGTATATAAATTATGATAAGATA-TATAT
10009593 GATATATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
42 5 0.14
43 25 0.68
44 1 0.03
45 6 0.16
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (45 bp):
TTATGTAAGTTTTGTAAGGTATATAAATTATGATAAGATATATAT
Found at i:10009608 original size:13 final size:13
Alignment explanation
Indices: 10009585--10009619 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
10009575 TTATGTAAGT
10009585 TATTATATGATATA
1 TATT-TATGATATA
10009599 TATTTATGATATA
1 TATTTATGATATA
10009612 TATTTATG
1 TATTTATG
10009620 TATTATGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (13 bp):
TATTTATGATATA
Found at i:10009622 original size:65 final size:65
Alignment explanation
Indices: 10009538--10009669 Score: 219
Period size: 65 Copynumber: 2.0 Consensus size: 65
10009528 TAAATTATGA
*
10009538 TATGATATATATTTATGTATTTTGTAAGGTATATAAGTTATGTAAGTTATTATATGATATATATT
1 TATGATATATATTTATGTATTATGTAAGGTATATAAGTTATGTAAGTTATTATATGATATATATT
* * * *
10009603 TATGATATATATTTATGTATTATGTAAGTTTTGTAAGTTGTGTAAGTTATTATATGATATATATT
1 TATGATATATATTTATGTATTATGTAAGGTATATAAGTTATGTAAGTTATTATATGATATATATT
10009668 TA
1 TA
10009670 ACATTAAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (65 bp):
TATGATATATATTTATGTATTATGTAAGGTATATAAGTTATGTAAGTTATTATATGATATATATT
Found at i:10009685 original size:21 final size:21
Alignment explanation
Indices: 10009661--10009712 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 21
10009651 ATTATATGAT
*
10009661 ATATATTTAACATTAAAATAA
1 ATATATTTAACATTAAAAAAA
** *
10009682 ATATTATTTCCCTTTAAAAAAA
1 ATA-TATTTAACATTAAAAAAA
10009704 ATAT-TTTAA
1 ATATATTTAA
10009713 TTAAATAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
20 3 0.12
21 4 0.17
22 17 0.71
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATATTTAACATTAAAAAAA
Found at i:10012154 original size:19 final size:20
Alignment explanation
Indices: 10012115--10012166 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
10012105 TTTTGATTTT
* *
10012115 GATTCGGGGAAATATTTAGG
1 GATTAGGGGAAATAGTTAGG
10012135 GATTAGGGGAAA-AGTTAGG
1 GATTAGGGGAAATAGTTAGG
*
10012154 GATTTGGGGAAAT
1 GATTAGGGGAAAT
10012167 TTGGGTGGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.33, C:0.02, G:0.38, T:0.27
Consensus pattern (20 bp):
GATTAGGGGAAATAGTTAGG
Found at i:10013497 original size:29 final size:29
Alignment explanation
Indices: 10013456--10013511 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
10013446 AGAGTTTAGA
**
10013456 TCATCGGTCATGATTTATTGGTTAGGCAG
1 TCATCGGTCATGATTTAGGGGTTAGGCAG
* *
10013485 TCATGGGTTATGATTTAGGGGTTAGGC
1 TCATCGGTCATGATTTAGGGGTTAGGC
10013512 TTCATATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.20, C:0.11, G:0.32, T:0.38
Consensus pattern (29 bp):
TCATCGGTCATGATTTAGGGGTTAGGCAG
Found at i:10014161 original size:41 final size:41
Alignment explanation
Indices: 10014102--10014295 Score: 241
Period size: 41 Copynumber: 4.8 Consensus size: 41
10014092 AACACAAGCC
* *
10014102 CCACTATATCTCAGTTTTTTGCGGCGTTTTTGA-GAAAAACG
1 CCACTATTTCTCAGTTTTTTGCGGCGTTTTGGATG-AAAACG
* *
10014143 CCATTATTTCTCTA-TTTTTTGCGGCGTTTTGGAT-AAAACA
1 CCACTATTTCTC-AGTTTTTTGCGGCGTTTTGGATGAAAACG
* * *
10014183 CCACTGTTTCTCTGTTTTTTGCGGTGTTTTGGATGAAAACG
1 CCACTATTTCTCAGTTTTTTGCGGCGTTTTGGATGAAAACG
* * *
10014224 CCACTATTACTCAGTTTTTAGCGGCGTTTTGGATGAAAATG
1 CCACTATTTCTCAGTTTTTTGCGGCGTTTTGGATGAAAACG
* *
10014265 CCACTATTGCTCAGTTTTTAGCGGCGTTTTG
1 CCACTATTTCTCAGTTTTTTGCGGCGTTTTG
10014296 TTTCAAACGC
Statistics
Matches: 133, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
40 34 0.26
41 98 0.74
42 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.41
Consensus pattern (41 bp):
CCACTATTTCTCAGTTTTTTGCGGCGTTTTGGATGAAAACG
Found at i:10014222 original size:81 final size:82
Alignment explanation
Indices: 10014102--10014295 Score: 241
Period size: 81 Copynumber: 2.4 Consensus size: 82
10014092 AACACAAGCC
* * * * *
10014102 CCACTATATCTCAGTTTTTTGCGGCGTTTTTGAGAAAAACGCCATTATTTCTCTA-TTTTTTGCG
1 CCACTATTTCTCAGTTTTTTGCGGCGTTTTGGAGAAAAACGCCACTATTACTC-AGTTTTTAGCG
10014166 GCGTTTTGGAT-AAAACA
65 GCGTTTTGGATGAAAACA
* * *
10014183 CCACTGTTTCTCTGTTTTTTGCGGTGTTTTGGATG-AAAACGCCACTATTACTCAGTTTTTAGCG
1 CCACTATTTCTCAGTTTTTTGCGGCGTTTTGGA-GAAAAACGCCACTATTACTCAGTTTTTAGCG
**
10014247 GCGTTTTGGATGAAAATG
65 GCGTTTTGGATGAAAACA
* *
10014265 CCACTATTGCTCAGTTTTTAGCGGCGTTTTG
1 CCACTATTTCTCAGTTTTTTGCGGCGTTTTG
10014296 TTTCAAACGC
Statistics
Matches: 95, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.01
81 63 0.66
82 31 0.33
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.41
Consensus pattern (82 bp):
CCACTATTTCTCAGTTTTTTGCGGCGTTTTGGAGAAAAACGCCACTATTACTCAGTTTTTAGCGG
CGTTTTGGATGAAAACA
Found at i:10017269 original size:3 final size:3
Alignment explanation
Indices: 10017255--10017314 Score: 61
Period size: 3 Copynumber: 20.3 Consensus size: 3
10017245 TTTAGGGTTT
* * *
10017255 AAG AAA AAG AAG AAG AAG AAG AAG AAG -TG AAGG AGG AAG -AG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA-G AAG AAG AAG AAG
*
10017299 AAG AAG AAG GAG AAG A
1 AAG AAG AAG AAG AAG A
10017315 GGAAAAATGG
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 3 0.07
3 41 0.89
4 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.37, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:10017951 original size:59 final size:59
Alignment explanation
Indices: 10017859--10017992 Score: 223
Period size: 59 Copynumber: 2.3 Consensus size: 59
10017849 TGTTGTTGTT
*
10017859 TACAAATTGCTTAACACTTGGTATACATGGCTGCTAGTTAGAAAAGATAACAATTGATA
1 TACAAATTGCTTAACAATTGGTATACATGGCTGCTAGTTAGAAAAGATAACAATTGATA
* * *
10017918 TACAAATTGCTTAATAATTGGTATACATGGCTGCTAGTTAGAAAAGATAACAGTTGGTA
1 TACAAATTGCTTAACAATTGGTATACATGGCTGCTAGTTAGAAAAGATAACAATTGATA
*
10017977 TACAAATTGCTCAACA
1 TACAAATTGCTTAACA
10017993 GTTAGATAAC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 69 1.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (59 bp):
TACAAATTGCTTAACAATTGGTATACATGGCTGCTAGTTAGAAAAGATAACAATTGATA
Found at i:10018424 original size:21 final size:21
Alignment explanation
Indices: 10018398--10018451 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
10018388 AGTTTCTTGA
* * *
10018398 TGAGTTGGGGTAGTAGGTATC
1 TGAGTTGGGGCAATAGGTAAC
*
10018419 TGAGTTAGGGCAATAGGTAAC
1 TGAGTTGGGGCAATAGGTAAC
10018440 TGAGTTGGGGCA
1 TGAGTTGGGGCA
10018452 CCTTGTTGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.07, G:0.41, T:0.28
Consensus pattern (21 bp):
TGAGTTGGGGCAATAGGTAAC
Found at i:10019250 original size:43 final size:43
Alignment explanation
Indices: 10019161--10019293 Score: 168
Period size: 40 Copynumber: 3.2 Consensus size: 43
10019151 TAAAAAAAAC
* * * * *
10019161 TCATTGCATGTATATTAAAAAATAGGCAACA-C--ACCAACAA
1 TCATTGCAAGCATATTAAAAAATAGTCAATAGCTTTCCAACAA
10019201 TCATTGCAAGCATATTAAAAAATAGTCAATAGCTTTCCAACAA
1 TCATTGCAAGCATATTAAAAAATAGTCAATAGCTTTCCAACAA
10019244 TCATTGCATA-CATATTAAAAAA-AGTCAATAGCTTTCCAACAA
1 TCATTGCA-AGCATATTAAAAAATAGTCAATAGCTTTCCAACAA
*
10019286 TCAGTGCA
1 TCATTGCA
10019294 TGTAATCAGC
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
40 27 0.33
41 1 0.01
42 27 0.33
43 27 0.33
44 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (43 bp):
TCATTGCAAGCATATTAAAAAATAGTCAATAGCTTTCCAACAA
Found at i:10019277 original size:42 final size:44
Alignment explanation
Indices: 10019161--10019294 Score: 174
Period size: 42 Copynumber: 3.2 Consensus size: 44
10019151 TAAAAAAAAC
* * * *
10019161 TCATTGCAT-GTATATTAAAAAATAGGCAACA-C--ACCAACAA
1 TCATTGCATAGCATATTAAAAAATAGTCAATAGCTTTCCAACAA
10019201 TCATTGCA-AGCATATTAAAAAATAGTCAATAGCTTTCCAACAA
1 TCATTGCATAGCATATTAAAAAATAGTCAATAGCTTTCCAACAA
10019244 TCATTGCATA-CATATTAAAAAA-AGTCAATAGCTTTCCAACAA
1 TCATTGCATAGCATATTAAAAAATAGTCAATAGCTTTCCAACAA
*
10019286 TCAGTGCAT
1 TCATTGCAT
10019295 GTAATCAGCA
Statistics
Matches: 84, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
40 27 0.32
41 1 0.01
42 28 0.33
43 27 0.32
44 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (44 bp):
TCATTGCATAGCATATTAAAAAATAGTCAATAGCTTTCCAACAA
Found at i:10021379 original size:48 final size:48
Alignment explanation
Indices: 10021271--10021418 Score: 228
Period size: 48 Copynumber: 3.1 Consensus size: 48
10021261 AATAAACATC
* *
10021271 ATGGCAGATATACAAAATA-AACATCAGTTTGATAAT-GCATTCATACA
1 ATGGCAGATATACACAATACAA-ATCAATTTGATAATGGCATTCATACA
10021318 ATGGCAGATATACACAATACAAATCAATTTGATAATGGCATTCATACA
1 ATGGCAGATATACACAATACAAATCAATTTGATAATGGCATTCATACA
* * *
10021366 ATGGCAGACATACACAATACACATCAATTTGATAATGGTATTCATACA
1 ATGGCAGATATACACAATACAAATCAATTTGATAATGGCATTCATACA
10021414 ATGGC
1 ATGGC
10021419 TGATGGCTGT
Statistics
Matches: 94, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
47 31 0.33
48 63 0.67
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.27
Consensus pattern (48 bp):
ATGGCAGATATACACAATACAAATCAATTTGATAATGGCATTCATACA
Found at i:10021657 original size:19 final size:19
Alignment explanation
Indices: 10021629--10021674 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
10021619 GTAAAAAGTA
10021629 AAAAAT-AAAAGATGAAAT
1 AAAAATAAAAAGATGAAAT
*
10021647 GAAAATAAAAAGATGAAAT
1 AAAAATAAAAAGATGAAAT
10021666 AAAAATAAA
1 AAAAATAAA
10021675 TAACAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (19 bp):
AAAAATAAAAAGATGAAAT
Found at i:10023730 original size:31 final size:31
Alignment explanation
Indices: 10023673--10023731 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
10023663 AATATTTAAT
* *
10023673 AATAAAATGAATGATTTAATTCAAAAAAATA
1 AATAAAATGAATGATATAATTAAAAAAAATA
10023704 AATAAAATGAATGATGAT-ATTAAAAAAA
1 AATAAAATGAATGAT-ATAATTAAAAAAA
10023732 CTGAATTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (31 bp):
AATAAAATGAATGATATAATTAAAAAAAATA
Found at i:10025882 original size:18 final size:18
Alignment explanation
Indices: 10025859--10025896 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10025849 TTTATTTTAG
10025859 TTTATGTATACTTT-TAAT
1 TTTATGT-TACTTTATAAT
*
10025877 TTTATGTTATTTTATAAT
1 TTTATGTTACTTTATAAT
10025895 TT
1 TT
10025897 CTTTTGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTATGTTACTTTATAAT
Found at i:10026094 original size:31 final size:29
Alignment explanation
Indices: 10026040--10026114 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
10026030 GCCATGTTAT
* *
10026040 TTTATACATATAGTTTTTTTTAAAAAATA
1 TTTATATATATAATTTTTTTTAAAAAATA
**
10026069 TTTATATATATAATTGTGTTTTTAAAATTTA
1 TTTATATATATAATT-T-TTTTTAAAAAATA
*
10026100 -TTACATATATAATTT
1 TTTATATATATAATTT
10026115 AAGATAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
29 14 0.36
30 14 0.36
31 11 0.28
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.55
Consensus pattern (29 bp):
TTTATATATATAATTTTTTTTAAAAAATA
Found at i:10026110 original size:30 final size:31
Alignment explanation
Indices: 10026056--10026113 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
10026046 CATATAGTTT
*
10026056 TTTTTAAAAAATATTTATATATATAATTGTG
1 TTTTTAAAAAATATTTACATATATAATTGTG
**
10026087 TTTTTAAAATTTA-TTACATATATAATT
1 TTTTTAAAAAATATTTACATATATAATT
10026114 TAAGATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (31 bp):
TTTTTAAAAAATATTTACATATATAATTGTG
Found at i:10030640 original size:30 final size:30
Alignment explanation
Indices: 10030604--10030662 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
10030594 TCAACGACTA
*
10030604 AGCTTGATGTTGGCAACACCTTACCAATCT
1 AGCTTGATGTTGGCAACACCTGACCAATCT
10030634 AGCTTGATGTTGGCAACACCTGACCAATC
1 AGCTTGATGTTGGCAACACCTGACCAATC
10030663 CACAAAACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (30 bp):
AGCTTGATGTTGGCAACACCTGACCAATCT
Found at i:10042232 original size:9 final size:9
Alignment explanation
Indices: 10042218--10042248 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10042208 AATTAATTAA
10042218 TTTTGAATT
1 TTTTGAATT
10042227 TTTTGAATT
1 TTTTGAATT
*
10042236 TTTTTAATT
1 TTTTGAATT
10042245 TTTT
1 TTTT
10042249 AAAATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (9 bp):
TTTTGAATT
Found at i:10043921 original size:21 final size:21
Alignment explanation
Indices: 10043887--10043930 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
10043877 AAATCTCTAC
*
10043887 AATTTCTCCCTAAAGCTCTCA
1 AATTTCTCACTAAAGCTCTCA
* **
10043908 AATTTCTCATTAAATTTCTCA
1 AATTTCTCACTAAAGCTCTCA
10043929 AA
1 AA
10043931 GTTTTTTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCTCACTAAAGCTCTCA
Found at i:10044000 original size:22 final size:21
Alignment explanation
Indices: 10043955--10044003 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
10043945 GTTATTTACT
* *
10043955 TTATTTTTTTCTAAATTAATA
1 TTATTTTTTTATAAATTAAAA
*
10043976 TTATTTTTTTATAATTTCAAAA
1 TTATTTTTTTATAAATT-AAAA
10043998 TTATTT
1 TTATTT
10044004 GATCATGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATTTTTTTATAAATTAAAA
Found at i:10044156 original size:53 final size:53
Alignment explanation
Indices: 10044087--10044204 Score: 202
Period size: 54 Copynumber: 2.2 Consensus size: 53
10044077 GTAATAGTTT
10044087 ATTTTAAATTTTGAATATTATTTAATATT-TTTTCATTTATGTAATTTTAATTA
1 ATTTT-AATTTTGAATATTATTTAATATTATTTTCATTTATGTAATTTTAATTA
10044140 ATTTTAATTTTGGAATATTATTTAATATTATTTTCATTTATGTAATTTTAATTA
1 ATTTTAATTTT-GAATATTATTTAATATTATTTTCATTTATGTAATTTTAATTA
*
10044194 ATTTTTATTTT
1 ATTTTAATTTT
10044205 ATAATTTTTT
Statistics
Matches: 62, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
52 6 0.10
53 22 0.35
54 34 0.55
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (53 bp):
ATTTTAATTTTGAATATTATTTAATATTATTTTCATTTATGTAATTTTAATTA
Found at i:10044209 original size:24 final size:24
Alignment explanation
Indices: 10044128--10044212 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 24
10044118 TTCATTTATG
10044128 TAATTTTAATTAATTTTAATTTTGGAA
1 TAATTTTAATTAATTTTAATTTT---A
* * * *
10044155 TATTATTTAATATTATTTTCATTTATG
1 TAAT-TTTAAT-TAATTTTAATTT-TA
*
10044182 TAATTTTAATTAATTTTTATTTTA
1 TAATTTTAATTAATTTTAATTTTA
10044206 TAATTTT
1 TAATTTT
10044213 TTATAACAGT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
24 8 0.17
25 10 0.21
26 6 0.13
27 6 0.13
28 6 0.13
29 10 0.21
30 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (24 bp):
TAATTTTAATTAATTTTAATTTTA
Found at i:10045742 original size:12 final size:12
Alignment explanation
Indices: 10045725--10045749 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10045715 ATCTGAGTTA
10045725 TAAAAATATTTT
1 TAAAAATATTTT
10045737 TAAAAATATTTT
1 TAAAAATATTTT
10045749 T
1 T
10045750 GGTGTTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAAATATTTT
Found at i:10047014 original size:41 final size:42
Alignment explanation
Indices: 10046903--10047056 Score: 136
Period size: 42 Copynumber: 3.7 Consensus size: 42
10046893 CCTTGTGCTG
* * * * * *
10046903 GTGTATTAAATCGGGCTTTATTGCCTAGTAGGCTTCATGCCG
1 GTGTATTATATCAGGCTCTATTGCCTAGCAGGCTTCAGGCCA
* * *
10046945 GTGTATTATATCGGGCTTTATTGCCTAGCAGGCTTTAGGCCA
1 GTGTATTATATCAGGCTCTATTGCCTAGCAGGCTTCAGGCCA
* * * *
10046987 GTGTGTTATGTCAGGC-CTATTGCCTAGCAGG-TTCTGTGCCG
1 GTGTATTATATCAGGCTCTATTGCCTAGCAGGCTTCAG-GCCA
*
10047028 GTGTATTATA-CTAGGCTTTA-TGCCTAGCA
1 GTGTATTATATC-AGGCTCTATTGCCTAGCA
10047057 AATTTTATGT
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
40 4 0.04
41 38 0.40
42 52 0.55
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.36
Consensus pattern (42 bp):
GTGTATTATATCAGGCTCTATTGCCTAGCAGGCTTCAGGCCA
Found at i:10048397 original size:12 final size:12
Alignment explanation
Indices: 10048380--10048406 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10048370 GAAAATAGGG
10048380 TTTTAGCGGCGT
1 TTTTAGCGGCGT
10048392 TTTTAGCGGCGT
1 TTTTAGCGGCGT
10048404 TTT
1 TTT
10048407 ATGATAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:10048504 original size:41 final size:41
Alignment explanation
Indices: 10048452--10048775 Score: 506
Period size: 41 Copynumber: 7.9 Consensus size: 41
10048442 CAATAAAAAC
*
10048452 AGAGCAATAGCGGCG-TTTTGGGTAAAACGCCGCTAAAGACA
1 AGAGCATTAGCGGCGCTTTT-GGTAAAACGCCGCTAAAGACA
*
10048493 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGATA
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACA
* *
10048534 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAATACC
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACA
* * *
10048575 ATAGCATTAGCAGCGCTTTTGGTAAAACGCCACTAAAGACA
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACA
*
10048616 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGATA
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACA
*
10048657 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACC
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACA
* *
10048698 ATAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACC
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACA
* * *
10048739 ATAGCATTAGCGACGCTTTTGGTAAAACACCGCTAAA
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
10048776 AGTCATATAA
Statistics
Matches: 263, Mismatches: 19, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
41 259 0.98
42 4 0.02
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (41 bp):
AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACA
Found at i:10048955 original size:14 final size:14
Alignment explanation
Indices: 10048933--10049031 Score: 72
Period size: 14 Copynumber: 6.8 Consensus size: 14
10048923 TTAATTATCA
*
10048933 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
10048947 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
10048961 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
* *
10048975 TTAAGGTTTATGAGT
1 TTATGGTTTAAG-GT
*
10048990 TAACTATGGTTTAAGAT
1 T---TATGGTTTAAGGT
* *
10049007 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
*
10049021 TTAAGGTTTAA
1 TTATGGTTTAA
10049032 CAGTTAACTA
Statistics
Matches: 64, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
14 51 0.80
15 3 0.05
17 1 0.02
18 9 0.14
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:10048968 original size:21 final size:21
Alignment explanation
Indices: 10048944--10049025 Score: 92
Period size: 21 Copynumber: 3.7 Consensus size: 21
10048934 TATAGTTTAA
*
10048944 GGTTTATGGTTTAAGATATAT
1 GGTTTAGGGTTTAAGATATAT
* *
10048965 GGTTTAGGGTTTAAGGTTTAT
1 GGTTTAGGGTTTAAGATATAT
*
10048986 GAGTTAACTATGGTTTAAGATATAT
1 G-GTT---TAGGGTTTAAGATATAT
10049011 GGTTTAGGGTTTAAG
1 GGTTTAGGGTTTAAG
10049026 GTTTAACAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
21 29 0.58
22 3 0.06
24 3 0.06
25 15 0.30
ACGTcount: A:0.27, C:0.01, G:0.28, T:0.44
Consensus pattern (21 bp):
GGTTTAGGGTTTAAGATATAT
Found at i:10048998 original size:46 final size:46
Alignment explanation
Indices: 10048948--10049041 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
10048938 GTTTAAGGTT
**
10048948 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAACAGTTAAC
10048994 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAACAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAACAGTTAAC
10049040 TA
1 TA
10049042 GTATTTGAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.30, C:0.03, G:0.24, T:0.43
Consensus pattern (46 bp):
TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAACAGTTAAC
Found at i:10049031 original size:7 final size:7
Alignment explanation
Indices: 10048938--10049031 Score: 53
Period size: 7 Copynumber: 12.9 Consensus size: 7
10048928 TATCATTATA
10048938 GTTTAAG
1 GTTTAAG
*
10048945 GTTTATG
1 GTTTAAG
10048952 GTTTAAG
1 GTTTAAG
* * *
10048959 ATATATG
1 GTTTAAG
*
10048966 GTTTAGG
1 GTTTAAG
10048973 GTTTAAG
1 GTTTAAG
*
10048980 GTTTATG
1 GTTTAAG
*
10048987 AGTTAACTATG
1 -GTT---TAAG
10048998 GTTTAAG
1 GTTTAAG
* * *
10049005 ATATATG
1 GTTTAAG
*
10049012 GTTTAGG
1 GTTTAAG
10049019 GTTTAAG
1 GTTTAAG
10049026 GTTTAA
1 GTTTAA
10049032 CAGTTAACTA
Statistics
Matches: 65, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
7 55 0.85
8 3 0.05
10 3 0.05
11 4 0.06
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.45
Consensus pattern (7 bp):
GTTTAAG
Found at i:10049153 original size:21 final size:21
Alignment explanation
Indices: 10049127--10049197 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 21
10049117 GGTGTAAGCT
10049127 GGGTTTGGGGTTAAGGGTTAA
1 GGGTTTGGGGTTAAGGGTTAA
* * * *
10049148 GGGTTTAGGGTTTAATGTTTAT
1 GGGTTT-GGGGTTAAGGGTTAA
* * *
10049170 GGGATAGGGGTTAAGAGGTTTA
1 GGGTTTGGGGTTAAG-GGTTAA
10049192 GGGTTT
1 GGGTTT
10049198 AGATTAATTA
Statistics
Matches: 35, Mismatches: 13, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
21 13 0.37
22 22 0.63
ACGTcount: A:0.20, C:0.00, G:0.42, T:0.38
Consensus pattern (21 bp):
GGGTTTGGGGTTAAGGGTTAA
Found at i:10054857 original size:18 final size:19
Alignment explanation
Indices: 10054836--10054876 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10054826 TTTATTGATA
10054836 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
10054854 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
10054873 TTTT
1 TTTT
10054877 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:10055088 original size:26 final size:23
Alignment explanation
Indices: 10055052--10055100 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 23
10055042 TTAATAGAAA
10055052 ATTTTTATATTTATATCATGGACATT
1 ATTTTTATATTT-T-TCAT-GACATT
10055078 ATTTTTATATTTTTCATGACATT
1 ATTTTTATATTTTTCATGACATT
10055101 TATAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.26
24 4 0.17
25 1 0.04
26 12 0.52
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (23 bp):
ATTTTTATATTTTTCATGACATT
Found at i:10055891 original size:30 final size:30
Alignment explanation
Indices: 10055823--10055893 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 30
10055813 ATGACGGCAT
*
10055823 AGGCCCATCAACAACGCCCACACAATCACC
1 AGGCCCATTAACAACGCCCACACAATCACC
* **
10055853 AGGCCCATTAGCAACGCCCACATGATCACC
1 AGGCCCATTAACAACGCCCACACAATCACC
*
10055883 GGGCCCATTAA
1 AGGCCCATTAA
10055894 TAGAGATTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.32, C:0.41, G:0.15, T:0.11
Consensus pattern (30 bp):
AGGCCCATTAACAACGCCCACACAATCACC
Found at i:10058343 original size:129 final size:125
Alignment explanation
Indices: 10057982--10058487 Score: 678
Period size: 125 Copynumber: 4.0 Consensus size: 125
10057972 GGCCAACCAT
* * * * * * *
10057982 GAACTACTGTAGAAAAA-ATGCATCCACGTGAGAACTTTTTTCAGAAATTTTGCTGACATTGCAT
1 GAACTACTGTAGAAAAAGA-GCGTCCACGTGGGAGCTTTTTTCTGTAATTTTGCTAACAGTGCAT
* *
10058046 CCTGCTTG-AGCTGTTTTGACACTATTTGTTCAGAAACGTCTTTTCAAAATTATTGTTTCAG
65 CCTGCTTGAAGCT-TTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
** * ** * *
10058107 GAACTACAATAGAAAAAAATTGTCCACGTGGGAGCTTTTTTCTGGAATTTTGCTAAAAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTGTAATTTTGCTAACAGTGCATC
10058172 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGC-TTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* * * *
10058233 GAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTTTTCTATAATTTTGCCAACAGTAC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGC---TTTTTTCTGTAATTTTGCTAACAGTGC
* *
10058298 ATCCTACTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTT-AG
63 ATCCTGCTTGAAGC-TTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* *
10058361 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAG-TTTTTTCTGTAATTTTACTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTGTAATTTTGCTAACAGTGCATC
*
10058425 CTGTTTGAAGTACTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAG--CTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
10058487 G
1 G
10058488 GTCAAAATAG
Statistics
Matches: 336, Mismatches: 36, Indels: 17
0.86 0.09 0.04
Matches are distributed among these distances:
124 33 0.10
125 103 0.31
126 83 0.25
127 1 0.00
128 35 0.10
129 81 0.24
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (125 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTGTAATTTTGCTAACAGTGCATC
CTGCTTGAAGCTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
Found at i:10058612 original size:30 final size:28
Alignment explanation
Indices: 10058569--10058729 Score: 115
Period size: 30 Copynumber: 5.1 Consensus size: 28
10058559 TTTTAACCCT
*
10058569 AAACCATAAACTCTAGTTTAATTTATTTA
1 AAACC-TAAACCCTAGTTTAATTTATTTA
* *
10058598 AAACTCTCAAACTCTAATCTACTTAATTTATTTAA
1 AAAC-CT-AAACCCT-A-GT--TTAATTTATTT-A
*
10058633 AAACCATAAACCGTAGTTTAATTTATTTA
1 AAACC-TAAACCCTAGTTTAATTTATTTA
* *
10058662 AAACCCTTGAACCCTAATTTACTTAATTTATTTAA
1 AAA-CC-TAAACCCT-A-GT--TTAATTTATTT-A
10058697 AAACCATAAACCCTAGTTTAATTTATTTA
1 AAACC-TAAACCCTAGTTTAATTTATTTA
10058726 AAAC
1 AAAC
10058730 TCTCGAACCC
Statistics
Matches: 107, Mismatches: 11, Indels: 28
0.73 0.08 0.19
Matches are distributed among these distances:
29 14 0.13
30 38 0.36
31 2 0.02
32 4 0.04
33 2 0.02
34 37 0.35
35 10 0.09
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.39
Consensus pattern (28 bp):
AAACCTAAACCCTAGTTTAATTTATTTA
Found at i:10058624 original size:34 final size:32
Alignment explanation
Indices: 10058586--10058800 Score: 146
Period size: 34 Copynumber: 6.6 Consensus size: 32
10058576 AAACTCTAGT
* *
10058586 TTAATTTATTTAAAACTCTCAAACTCTAATCTAC
1 TTAATTTATTTAAAAC-CT-AAACCCTAATGTAC
*
10058620 TTAATTTATTTAAAAACCATAAACCGT-A-GT--
1 TTAATTTATTT-AAAACC-TAAACCCTAATGTAC
* *
10058650 TTAATTTATTTAAAACCCTTGAACCCTAATTTAC
1 TTAATTTATTTAAAA-CC-TAAACCCTAATGTAC
10058684 TTAATTTATTTAAAAACCATAAACCCT-A-GT--
1 TTAATTTATTT-AAAACC-TAAACCCTAATGTAC
* *
10058714 TTAATTTATTTAAAACTCTCGAACCCTAATTTAC
1 TTAATTTATTTAAAAC-CT-AAACCCTAATGTAC
* *
10058748 TTAATTTATTTAAAAACCCTAAATCATAAAT-T--
1 TTAATTTATTT-AAAA-CCTAAACCCT-AATGTAC
10058780 TTAATTTATTTAAAACACTAA
1 TTAATTTATTTAAAAC-CTAA
10058801 CTTAATTGAT
Statistics
Matches: 148, Mismatches: 15, Indels: 39
0.73 0.07 0.19
Matches are distributed among these distances:
29 10 0.07
30 38 0.26
31 10 0.07
32 15 0.10
33 2 0.01
34 53 0.36
35 19 0.13
36 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.40
Consensus pattern (32 bp):
TTAATTTATTTAAAACCTAAACCCTAATGTAC
Found at i:10058650 original size:64 final size:63
Alignment explanation
Indices: 10058569--10058795 Score: 328
Period size: 64 Copynumber: 3.5 Consensus size: 63
10058559 TTTTAACCCT
* * *
10058569 AAACCATAAACTCTAGTTTAATTTATTTAAAACTCTCAAACTCTAATCTACTTAATTTATTTAA
1 AAACCATAAAC-CTAGTTTAATTTATTTAAAACTCTCGAACCCTAATTTACTTAATTTATTTAA
* *
10058633 AAACCATAAACCGTAGTTTAATTTATTTAAAACCCTTGAACCCTAATTTACTTAATTTATTTAA
1 AAACCATAAACC-TAGTTTAATTTATTTAAAACTCTCGAACCCTAATTTACTTAATTTATTTAA
10058697 AAACCATAAACCCTAGTTTAATTTATTTAAAACTCTCGAACCCTAATTTACTTAATTTATTTAA
1 AAACCATAAA-CCTAGTTTAATTTATTTAAAACTCTCGAACCCTAATTTACTTAATTTATTTAA
* * *
10058761 AAACCCTAAATCATAAATTTTAATTTATTTAAAAC
1 AAACCATAAA-CCT--AGTTTAATTTATTTAAAAC
10058796 ACTAACTTAA
Statistics
Matches: 148, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
63 1 0.01
64 127 0.86
65 2 0.01
66 18 0.12
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.39
Consensus pattern (63 bp):
AAACCATAAACCTAGTTTAATTTATTTAAAACTCTCGAACCCTAATTTACTTAATTTATTTAA
Found at i:10058755 original size:30 final size:28
Alignment explanation
Indices: 10058657--10058755 Score: 72
Period size: 30 Copynumber: 3.2 Consensus size: 28
10058647 AGTTTAATTT
10058657 ATTTAAAACCCTTGAACCCTAATTTACTTAA
1 ATTTAAAA-CC-TGAACCCTAATTTACTT-A
* * * *
10058688 TTTATTTAAAAACCATAAACCCTAGTTTAATTT
1 ---ATTT-AAAACC-TGAACCCTAATTTACTTA
10058721 ATTTAAAACTCTCGAACCCTAATTTACTTA
1 ATTTAAAAC-CT-GAACCCTAATTTACTTA
10058751 ATTTA
1 ATTTA
10058756 TTTAAAAACC
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
29 6 0.11
30 23 0.43
34 20 0.38
35 4 0.08
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.39
Consensus pattern (28 bp):
ATTTAAAACCTGAACCCTAATTTACTTA
Found at i:10058806 original size:22 final size:22
Alignment explanation
Indices: 10058780--10058836 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
10058770 ATCATAAATT
*
10058780 TTAATTTATTTAAAACACTAAC
1 TTAATTAATTTAAAACACTAAC
* * *
10058802 TTAATTGATTTAAAACCCTAAT
1 TTAATTAATTTAAAACACTAAC
*
10058824 TTACTTAATTTAA
1 TTAATTAATTTAA
10058837 TTTATTTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (22 bp):
TTAATTAATTTAAAACACTAAC
Found at i:10058840 original size:53 final size:54
Alignment explanation
Indices: 10058746--10058847 Score: 145
Period size: 53 Copynumber: 1.9 Consensus size: 54
10058736 ACCCTAATTT
*
10058746 ACTTAATTTATTTAAAAACCCTAAATCATAAATTTTAATTTATTTAAAACACTA
1 ACTTAATTGATTTAAAAACCCTAAATCATAAATTTTAATTTATTTAAAACACTA
* * *
10058800 ACTTAATTGATTT-AAAACCCTAATTTACTTAA-TTTAATTTATTTAAAA
1 ACTTAATTGATTTAAAAACCCTAAATCA-TAAATTTTAATTTATTTAAAA
10058848 GCCATAAACC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
53 28 0.65
54 15 0.35
ACGTcount: A:0.44, C:0.12, G:0.01, T:0.43
Consensus pattern (54 bp):
ACTTAATTGATTTAAAAACCCTAAATCATAAATTTTAATTTATTTAAAACACTA
Found at i:10059490 original size:15 final size:16
Alignment explanation
Indices: 10059472--10059501 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10059462 TAGTTAGTAA
10059472 AAATAATTAT-ATTTG
1 AAATAATTATGATTTG
10059487 AAATAATTATGATTT
1 AAATAATTATGATTT
10059502 AATAATATTA
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:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (16 bp):
AAATAATTATGATTTG
Found at i:10067446 original size:26 final size:26
Alignment explanation
Indices: 10067417--10067469 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
10067407 TCAAACATGC
10067417 ATTTAGGTTAATTTAAC-CCTAGGGGT
1 ATTTAGG-TAATTTAACTCCTAGGGGT
* *
10067443 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAGGTAATTTAACTCCTAGGGGT
10067469 A
1 A
10067470 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTAACTCCTAGGGGT
Found at i:10073618 original size:15 final size:14
Alignment explanation
Indices: 10073598--10073653 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
10073588 TAAATATAAT
10073598 TATTTAATAGATATA
1 TATTTAATA-ATATA
10073613 TATTTAATTAATATA
1 TATTTAA-TAATATA
*
10073628 -ATTAAATAATATA
1 TATTTAATAATATA
10073641 -ACTTTTAATAATA
1 TA--TTTAATAATA
10073654 AAAAATATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
13 8 0.22
14 5 0.14
15 21 0.58
16 2 0.06
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (14 bp):
TATTTAATAATATA
Found at i:10074859 original size:10 final size:10
Alignment explanation
Indices: 10074835--10074894 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
10074825 TAATTTTAGG
10074835 ATTTAT-TTT
1 ATTTATCTTT
10074844 GATTTATCTTT
1 -ATTTATCTTT
*
10074855 TTTTATCTTT
1 ATTTATCTTT
*
10074865 AATTATCTTT
1 ATTTATCTTT
10074875 ATTTAT-TTGT
1 ATTTATCTT-T
10074885 ATTTATCTTT
1 ATTTATCTTT
10074895 TAAAATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 36 0.84
11 5 0.12
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:10075646 original size:17 final size:18
Alignment explanation
Indices: 10075614--10075647 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10075604 TATTCTTCAT
*
10075614 TTTAATTTTTGCAATTTA
1 TTTAATTTTCGCAATTTA
10075632 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
10075648 CAATTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:10078603 original size:25 final size:24
Alignment explanation
Indices: 10078574--10078627 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
10078564 GGCAACCTAA
*
10078574 TTTTTTT--TATTAATTTTTTTAT
1 TTTTTTTACTATTAATTATTTTAT
*
10078596 TTTATTTTACTATTTATTATTTTAT
1 TTT-TTTTACTATTAATTATTTTAT
10078621 TTTTTTT
1 TTTTTTT
10078628 GGATGTTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 3 0.11
23 4 0.15
24 4 0.15
25 16 0.59
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTTTTACTATTAATTATTTTAT
Found at i:10079540 original size:96 final size:95
Alignment explanation
Indices: 10079366--10079540 Score: 235
Period size: 96 Copynumber: 1.8 Consensus size: 95
10079356 TAATTTCTAA
* * * * *
10079366 GAATGTGTTGGGCTGAATATCCGGGGTGAGCTGTTTGGCTGTCATCTCTCTTTGCGTCAAAAGGT
1 GAATGTGCTGGGATGAATAACCGGGGTGAGCTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGT
**
10079431 TCGATATGTTCTTAGAAATAATAAAATTAG
66 TCGATATACTCTTAGAAATAATAAAATTAG
* * *
10079461 GAATGTGCTGGGATGAATAACCGGGGTGGGGTGCTTGGATTGTCATCTCTCTTCGCGTCAAAAGG
1 GAATGTGCTGGGATGAATAACCGGGGTGAGCTGCTTGG-CTGTCATCTCTCTTCGCGTCAAAAGG
10079526 TTC-AGTATACTCTTA
65 TTCGA-TATACTCTTA
10079541 AGTGAAAGTA
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
95 33 0.49
96 35 0.51
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (95 bp):
GAATGTGCTGGGATGAATAACCGGGGTGAGCTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGT
TCGATATACTCTTAGAAATAATAAAATTAG
Found at i:10080188 original size:20 final size:20
Alignment explanation
Indices: 10080163--10080202 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
10080153 TAATTTTAGA
10080163 ATTTATTT-TCATTTATCTTT
1 ATTTATTTGT-ATTTATCTTT
10080183 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
10080203 TAGAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTATTTGTATTTATCTTT
Found at i:10100164 original size:54 final size:54
Alignment explanation
Indices: 10100088--10100194 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
10100078 TTCTATTGCC
10100088 CCGTTTAGAAAAATCTTCTAACAAACAATTGTTTAAGAGTCTATTCATTATTGG
1 CCGTTTAGAAAAATCTTCTAACAAACAATTGTTTAAGAGTCTATTCATTATTGG
*
10100142 CCGTTTAGAAAAATCTTCTAACAAACACTTGTTTAAGAGTCTATTCATTATTG
1 CCGTTTAGAAAAATCTTCTAACAAACAATTGTTTAAGAGTCTATTCATTATTG
10100195 CACGACCCCT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (54 bp):
CCGTTTAGAAAAATCTTCTAACAAACAATTGTTTAAGAGTCTATTCATTATTGG
Found at i:10109266 original size:21 final size:21
Alignment explanation
Indices: 10109191--10109256 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 21
10109181 GTCTTGAATT
10109191 TGTTAGATATTGAATTTATTA
1 TGTTAGATATTGAATTTATTA
* *
10109212 TGTTTTAAGCTTGTTGAATTTATTA
1 TG--TT-AG-ATATTGAATTTATTA
10109237 TGTTAGATATTGAATTTATT
1 TGTTAGATATTGAATTTATT
10109257 TAGTTGGATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 14 0.38
22 2 0.05
23 4 0.11
24 2 0.05
25 15 0.41
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.55
Consensus pattern (21 bp):
TGTTAGATATTGAATTTATTA
Found at i:10110852 original size:15 final size:14
Alignment explanation
Indices: 10110819--10110885 Score: 107
Period size: 14 Copynumber: 4.7 Consensus size: 14
10110809 CCAGAAAAGT
10110819 AAATCATTTTCCAG
1 AAATCATTTTCCAG
10110833 AAATCATTTTCCAGG
1 AAATCATTTTCCA-G
10110848 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
10110862 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
10110876 AAAACATTTT
1 AAATCATTTT
10110886 ACCTGCAAAC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
14 36 0.72
15 14 0.28
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:10110852 original size:29 final size:28
Alignment explanation
Indices: 10110819--10110885 Score: 116
Period size: 29 Copynumber: 2.4 Consensus size: 28
10110809 CCAGAAAAGT
10110819 AAATCATTTTCCAGAAATCATTTTCCAGG
1 AAATCATTTTCCAGAAATCATTTTCC-GG
10110848 AAATCATTTTCCAGAAATCATTTTCCGG
1 AAATCATTTTCCAGAAATCATTTTCCGG
*
10110876 AAAACATTTT
1 AAATCATTTT
10110886 ACCTGCAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 11 0.30
29 26 0.70
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (28 bp):
AAATCATTTTCCAGAAATCATTTTCCGG
Found at i:10115025 original size:25 final size:25
Alignment explanation
Indices: 10114997--10115048 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
10114987 TAGAAAGGAG
10114997 TTGGAAAGGGAGA-GAAGTAAAAGTT
1 TTGGAAAGGGAGATG-AGTAAAAGTT
** *
10115022 TTGGGGAGGGTGATGAGTAAAAGTT
1 TTGGAAAGGGAGATGAGTAAAAGTT
10115047 TT
1 TT
10115049 TGGAGGAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.38, T:0.27
Consensus pattern (25 bp):
TTGGAAAGGGAGATGAGTAAAAGTT
Found at i:10115312 original size:9 final size:9
Alignment explanation
Indices: 10115300--10115328 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
10115290 TTTGTTCGGT
10115300 TTATTTGAA
1 TTATTTGAA
10115309 TTATTTGAA
1 TTATTTGAA
10115318 TTATTTGAA
1 TTATTTGAA
10115327 TT
1 TT
10115329 TGAAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (9 bp):
TTATTTGAA
Found at i:10116264 original size:26 final size:26
Alignment explanation
Indices: 10116233--10116342 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
10116223 TGATACAAAT
10116233 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
10116259 TAATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10116285 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
10116311 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10116337 TGATAA
1 TGATAA
10116343 GAATTTCATA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10117798 original size:25 final size:24
Alignment explanation
Indices: 10117708--10117837 Score: 224
Period size: 24 Copynumber: 5.2 Consensus size: 24
10117698 TGATACAAAT
10117708 TGATAATAGGTTAGGTAAATGTTCA
1 TGATAAT-GGTTAGGTAAATGTTCA
10117733 TGATAATGGTTAGGTAAATGTTCA
1 TGATAATGGTTAGGTAAATGTTCA
10117757 TGATAATGGTTAGGTAAATGTTCA
1 TGATAATGGTTAGGTAAATGTTCA
10117781 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATG-TTCA
10117807 TGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGTTAGGTAAATG-TTCA
10117832 TGATAA
1 TGATAA
10117838 GAATTTCATG
Statistics
Matches: 103, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
24 48 0.47
25 44 0.43
26 11 0.11
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.38
Consensus pattern (24 bp):
TGATAATGGTTAGGTAAATGTTCA
Found at i:10119346 original size:26 final size:26
Alignment explanation
Indices: 10119317--10119369 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
10119307 TTTACAGTTT
10119317 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
10119343 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
10119369 T
1 T
10119370 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:10123341 original size:19 final size:19
Alignment explanation
Indices: 10123314--10123357 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
10123304 TAGTTTATGC
* * *
10123314 ATTACTTTTACCATTTTTT
1 ATTATTTTTAACATTATTT
*
10123333 ATTATTTTTAATATTATTT
1 ATTATTTTTAACATTATTT
10123352 ATTATT
1 ATTATT
10123358 ATATTTACCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTATTTTTAACATTATTT
Found at i:10123370 original size:22 final size:22
Alignment explanation
Indices: 10123326--10123371 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
10123316 TACTTTTACC
* * *
10123326 ATTTTTTATTATTTTTAATATT
1 ATTTATTATTATATTTAACATT
*
10123348 ATTTATTATTATATTTACCATT
1 ATTTATTATTATATTTAACATT
10123370 AT
1 AT
10123372 CGGTATTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (22 bp):
ATTTATTATTATATTTAACATT
Done.