Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 89 of 378
Found at i:24024138 original size:79 final size:79
Alignment explanation
Indices: 24023986--24024586 Score: 713
Period size: 79 Copynumber: 7.4 Consensus size: 79
24023976 CAAAATTCAG
*
24023986 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCTCCCTAAGCAGTAG
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-CA---CAGATCTTATCTCCCTAAGCAGTAG
*
24024051 TGGAGCAGATCGAAGACT
62 CGGAGCAGATCGAAGACT
* *
24024069 CACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCTCTAAGCAGTAGCGGA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAAGCAGTAGCGGA
* *
24024134 GCAGATTGAAGGCT
66 GCAGATCGAAGACT
* *
24024148 CGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAAGCAGTAGCGGA
24024213 GCAGATCGATGACGACT
66 GCAGATCGA--A-GACT
* * * *
24024230 CACCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGTAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-CA----CAGATCTTATCTCCCTAAGCAGTA
** * * *
24024295 GTAGAGTAAATTGAAGACT
61 GCGGAGCAGATCGAAGACT
* * *
24024314 TGCCTTAATCCCCTAAGCAGTAGGGTAACACGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAAGCAGTAGCGGA
*
24024379 GTAGATCGAAGACT
66 GCAGATCGAAGACT
*
24024393 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAAGCAGTAGCGGA
*
24024458 ACAGATCGATGACGACT
66 GCAGATCGA--A-GACT
* * *
24024475 CGCCTTAATCCCCTAATCAGTAGGGAAACAGGTTAAATTTGCAGATCTTA--TCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-CA----CAGATCTTATCTCCCTAAGCAGTA
*
24024538 GCAGAGCAGATCGAAGACGAT
61 GCGGAGCAGATCGAAGAC--T
* *
24024559 GCACCTTAA-CCCCTAAGCAGTAGCGTAA
1 -CGCCTTAATCCCCTAAGCAGTAGGGTAA
24024587 TAGACCAAAG
Statistics
Matches: 451, Mismatches: 48, Indels: 37
0.84 0.09 0.07
Matches are distributed among these distances:
79 216 0.48
81 2 0.00
82 74 0.16
83 34 0.08
84 51 0.11
85 33 0.07
87 41 0.09
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (79 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCTCCCTAAGCAGTAGCGGA
GCAGATCGAAGACT
Found at i:24024200 original size:38 final size:38
Alignment explanation
Indices: 24023996--24024461 Score: 194
Period size: 38 Copynumber: 11.6 Consensus size: 38
24023986 CGCCTTAATC
*
24023996 CCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGG-T---TCGCAGATCTTATCT
* * *
24024038 CCCTAAGCAGTAGTGG-AGCA-GATCGAAGACTCACCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTCGCAGA-T---CTT-ATCT
*
24024079 CCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCT
* * * * *
24024117 CTCTAAGCAGTAGCGG-AGCAGATT-GAAGGCTCGCCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTCGCA-GAT---CTT-ATCT
*
24024158 CCCTAAGTAGTAGGGTAACAGGTTCGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCT
* * *
24024196 CCCTAAGCAGTAGCGG-AGCA-GATCGATGACGACTCACCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTCG--CA-GA-T---CTT-ATCT
* * *
24024240 CCTTAAGCAGTAGGGTAACAGGTTAAATTTGTAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTATCT
*
24024283 CCCTAAGCAGTAGTAGAGTAA-A--TT-GAAGACTTGCCTTAATC-
1 CCCTAAGCAGTAG--G-GTAACAGGTTCGCAGA--T--CTT-ATCT
*
24024324 CCCTAAGCAGTAGGGTAACACGTTCGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCT
** * *
24024362 CCCTAAGCAGTAGCGG-AGTA-GATCGAAGACTCGCCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTCGCAGA-T---CTT-ATCT
24024403 CCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCT
24024441 CCCTAAGCAGTAGCGG-AACAG
1 CCCTAAGCAGTAG-GGTAACAG
24024462 ATCGATGACG
Statistics
Matches: 326, Mismatches: 40, Indels: 120
0.67 0.08 0.25
Matches are distributed among these distances:
37 33 0.10
38 88 0.27
39 12 0.04
40 9 0.03
41 81 0.25
42 50 0.15
43 19 0.06
44 18 0.06
45 6 0.02
46 5 0.02
47 2 0.01
48 1 0.00
50 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.24
Consensus pattern (38 bp):
CCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATCT
Found at i:24024322 original size:166 final size:161
Alignment explanation
Indices: 24023986--24024586 Score: 738
Period size: 166 Copynumber: 3.7 Consensus size: 161
24023976 CAAAATTCAG
24023986 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATT-GCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGG----ATTCGCAGATCTTATCTCCCTAAGCAGTA
*
24024050 GTGGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCA---CAGATCT
62 GCGGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-ATTGCAGATCT
* *
24024112 TATCTCTCTAAGCAGTAGCGGAGCAGATTGAAGGCT
126 TATCTCCCTAAGCAGTAGCGGAGCAGATTGAAGACT
*
24024148 CGCCTTAATCCCCTAAGTAGTAGGGTAACAGG-TTCGCAGATCTTATCTCCCTAAGCAGTAGCGG
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGATTCGCAGATCTTATCTCCCTAAGCAGTAGCGG
* *
24024212 AGCAGATCGATGACGACTCACCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGTAGATC
66 AGCAGATCGA--A-GACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTT--A-TTGCAGATC
** * *
24024277 TTATCTCCCTAAGCAGTAGTAGAGTAAATTGAAGACT
125 TTATCTCCCTAAGCAGTAGCGGAGCAGATTGAAGACT
* *
24024314 TGCCTTAATCCCCTAAGCAGTAGGGTAACACG-TTCGCAGATCTTATCTCCCTAAGCAGTAGCGG
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGATTCGCAGATCTTATCTCCCTAAGCAGTAGCGG
* * *
24024378 AGTAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-T-TCGCAGATCTTATCT
66 AGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTATTGCAGATCTTATCT
* *
24024441 CCCTAAGCAGTAGCGGAACAGATCGATGACGACT
131 CCCTAAGCAGTAGCGGAGCAGAT---TGAAGACT
* * *
24024475 CGCCTTAATCCCCTAATCAGTAGGGAAACAGGTTAAATTTGCAGATCTTA--TCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGG----ATTCGCAGATCTTATCTCCCTAAGCAGTA
* *
24024538 GCAGAGCAGATCGAAGACGATGCACCTTAA-CCCCTAAGCAGTAGCGTAA
62 GCGGAGCAGATCGAAGAC--T-CACCTTAATCCCCTAAGCAGTAGGGTAA
24024587 TAGACCAAAG
Statistics
Matches: 385, Mismatches: 34, Indels: 36
0.85 0.07 0.08
Matches are distributed among these distances:
157 2 0.01
158 69 0.18
160 1 0.00
161 72 0.19
162 33 0.09
163 34 0.09
164 30 0.08
166 137 0.36
167 7 0.02
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (161 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGATTCGCAGATCTTATCTCCCTAAGCAGTAGCGG
AGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTATTGCAGATCTTATCT
CCCTAAGCAGTAGCGGAGCAGATTGAAGACT
Found at i:24024417 original size:245 final size:245
Alignment explanation
Indices: 24023988--24024586 Score: 945
Period size: 245 Copynumber: 2.4 Consensus size: 245
24023978 AAATTCAGCG
24023988 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA-TTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
* ** *
24024052 GGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCACAGATCTTATCT
66 AGAGCAGATCGAAGACTTGCCTTAATCCCCTAAGCAGTAGGGTAACACGTTCACAGATCTTATCT
* * * *
24024117 CTCTAAGCAGTAGCGGAGCAGATTGAAGGCTCGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTT
131 CCCTAAGCAGTAGCGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
*
24024182 CGCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGATGACGACTCA
196 CGCAGATCTTATCTCCCTAAGCAGTAGCGGAACAGATCGATGACGACTCA
* *
24024232 CCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGTAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
* * * *
24024297 AGAGTAAATTGAAGACTTGCCTTAATCCCCTAAGCAGTAGGGTAACACGTTCGCAGATCTTATCT
66 AGAGCAGATCGAAGACTTGCCTTAATCCCCTAAGCAGTAGGGTAACACGTTCACAGATCTTATCT
*
24024362 CCCTAAGCAGTAGCGGAGTAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
131 CCCTAAGCAGTAGCGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
*
24024427 CGCAGATCTTATCTCCCTAAGCAGTAGCGGAACAGATCGATGACGACTCG
196 CGCAGATCTTATCTCCCTAAGCAGTAGCGGAACAGATCGATGACGACTCA
* * *
24024477 CCTTAATCCCCTAATCAGTAGGGAAACAGGTTAAATTTGCAGATCTTA--TCCCTAAGCAGTAGC
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
* *
24024540 AGAGCAGATCGAAGACGATGCACCTTAA-CCCCTAAGCAGTAGCGTAA
66 AGAGCAGATCGAAGAC-TTG--CCTTAATCCCCTAAGCAGTAGGGTAA
24024587 TAGACCAAAG
Statistics
Matches: 324, Mismatches: 27, Indels: 7
0.91 0.08 0.02
Matches are distributed among these distances:
243 27 0.08
244 36 0.11
245 255 0.79
246 6 0.02
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (245 bp):
CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
AGAGCAGATCGAAGACTTGCCTTAATCCCCTAAGCAGTAGGGTAACACGTTCACAGATCTTATCT
CCCTAAGCAGTAGCGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
CGCAGATCTTATCTCCCTAAGCAGTAGCGGAACAGATCGATGACGACTCA
Found at i:24024898 original size:175 final size:175
Alignment explanation
Indices: 24024676--24025059 Score: 651
Period size: 175 Copynumber: 2.2 Consensus size: 175
24024666 CTTTGACGGA
* **
24024676 GAGCAAATCGAAGACATAGCAGATTTGACTTCCGGATGTTCTCACACCAAAGCAGATCCAAGATA
1 GAGCAAATCGAAGACATAGCAGATTTGACTTTCAAATGTTCTCACACCAAAGCAGATCCAAGATA
** * *
24024741 ACAGATCTGGCATCTCCATTTTGACGGAGAGCAGATACATGGCAGATCTAACCTTCAGATGATTT
66 ACAGATCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGAGCTAACCTTCAGATGATTT
* * *
24024806 TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAG
131 TAATGAAGCAGATCCAAGATGATTCGGCATCCTTATGTTCACAAG
24024851 GAGCAAATCGAAGACATAGCAGATTTGACTTTCAAATGTTCTCACACCAAAGCAGATCCAAGATA
1 GAGCAAATCGAAGACATAGCAGATTTGACTTTCAAATGTTCTCACACCAAAGCAGATCCAAGATA
*
24024916 ACAGATCTGGCATCTCCATTTCAACGGAGAGTAGATACATAGCAGAGCTAACCTTCAGATGATTT
66 ACAGATCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGAGCTAACCTTCAGATGATTT
*
24024981 TAATGAAGCAGATCCAAGATGATTCGGCATCTTTATGTTCACAAG
131 TAATGAAGCAGATCCAAGATGATTCGGCATCCTTATGTTCACAAG
*
24025026 GAGCAAATCGAAGACATAGCAGATTTGGCTTTCA
1 GAGCAAATCGAAGACATAGCAGATTTGACTTTCA
24025060 CGTGTTTACG
Statistics
Matches: 196, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
175 196 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (175 bp):
GAGCAAATCGAAGACATAGCAGATTTGACTTTCAAATGTTCTCACACCAAAGCAGATCCAAGATA
ACAGATCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGAGCTAACCTTCAGATGATTT
TAATGAAGCAGATCCAAGATGATTCGGCATCCTTATGTTCACAAG
Found at i:24025000 original size:86 final size:86
Alignment explanation
Indices: 24024725--24025000 Score: 249
Period size: 86 Copynumber: 3.2 Consensus size: 86
24024715 TCTCACACCA
** * *
24024725 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTTGACGGAGAGCAGATACATGGCAGATCT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCAACGGAGAGTAGATACATAGCAGATCT
*
24024790 AACCTTCAGATGATTTTACTG
66 AACCTTCAGATGATTTTAATG
* ** * * * *
24024811 AAGCAGATCCAAGAT----GATTTGGCATC-CTTGTGTTCACAAGGAGCAAATCGAAGACATAGC
1 AAGCAGATCCAAGATAACAGATCTGGCATCTC-CAT-TTCA-ACGGAG--AGTAG-ATACATAGC
* * * * * **
24024871 AGATTTGACTTTCAAATG-TTCTCACACCA
60 AGATCTAACCTTCAGATGATT-TTA-A-TG
*
24024900 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCAACGGAGAGTAGATACATAGCAGAGCT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCAACGGAGAGTAGATACATAGCAGATCT
24024965 AACCTTCAGATGATTTTAATG
66 AACCTTCAGATGATTTTAATG
24024986 AAGCAGATCCAAGAT
1 AAGCAGATCCAAGAT
24025001 GATTCGGCAT
Statistics
Matches: 141, Mismatches: 34, Indels: 30
0.69 0.17 0.15
Matches are distributed among these distances:
81 1 0.01
82 11 0.08
83 2 0.01
84 5 0.04
86 34 0.24
87 24 0.17
88 23 0.16
89 20 0.14
91 5 0.04
92 4 0.03
93 11 0.08
94 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (86 bp):
AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCAACGGAGAGTAGATACATAGCAGATCT
AACCTTCAGATGATTTTAATG
Found at i:24025075 original size:87 final size:85
Alignment explanation
Indices: 24024804--24025091 Score: 214
Period size: 87 Copynumber: 3.3 Consensus size: 85
24024794 TTCAGATGAT
* * *
24024804 TTTA-CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACAT
1 TTTACCTGAAGCAGATCCAAGATGATTCGGCATCTTTATGTTCACAAGGAGCAAATCGAAGACAT
*
24024868 AGCAGATTTGACTTTCAAATG
66 AGCAGATTTGACTTTC-AGTG
** ** * * *
24024889 TTCTCACACCAAAGCAGATCCAAGATAACAGA-TCTGGCATCTCCAT-TTCA-ACGGAG--AGTA
1 TT-T-AC-CTGAAGCAGATCCAAGAT----GATTC-GGCATCTTTATGTTCACAAGGAGCAAATC
* ** * *
24024949 G-ATACATAGCAGAGCTAACCTTCAGATG
58 GAAGACATAGCAGATTTGACTTTCAG-TG
*
24024977 ATTTTA-ATGAAGCAGATCCAAGATGATTCGGCATCTTTATGTTCACAAGGAGCAAATCGAAGAC
1 --TTTACCTGAAGCAGATCCAAGATGATTCGGCATCTTTATGTTCACAAGGAGCAAATCGAAGAC
*
24025041 ATAGCAGATTTGGCTTTCACGTG
64 ATAGCAGATTTGACTTTCA-GTG
* *
24025064 TTTACGCTGAAGCAAATCTAAGATGATT
1 TTTAC-CTGAAGCAGATCCAAGATGATT
24025092 TAGCATCTCT
Statistics
Matches: 149, Mismatches: 33, Indels: 40
0.67 0.15 0.18
Matches are distributed among these distances:
82 11 0.07
83 6 0.04
84 5 0.03
85 6 0.04
86 19 0.13
87 40 0.27
88 21 0.14
89 20 0.13
90 2 0.01
91 5 0.03
92 5 0.03
93 9 0.06
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (85 bp):
TTTACCTGAAGCAGATCCAAGATGATTCGGCATCTTTATGTTCACAAGGAGCAAATCGAAGACAT
AGCAGATTTGACTTTCAGTG
Found at i:24025540 original size:19 final size:19
Alignment explanation
Indices: 24025516--24025633 Score: 143
Period size: 19 Copynumber: 6.2 Consensus size: 19
24025506 AATCTTTAAG
*
24025516 GATATGCAATCTTCGATAT
1 GATATGCAATCTTAGATAT
*
24025535 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
24025554 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24025573 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
24025590 GATATG-ATATGATATGATAT
1 GATATGCA-ATCTTA-GATAT
24025610 GATATGCAATCTTGACGATAT
1 GATATGCAATCTT-A-GATAT
24025631 GAT
1 GAT
24025634 TTTGTAATCT
Statistics
Matches: 85, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
17 17 0.20
18 1 0.01
19 43 0.51
20 14 0.16
21 10 0.12
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:24025573 original size:14 final size:15
Alignment explanation
Indices: 24025554--24025591 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
24025544 TCTTAGATGT
24025554 GATATG-CAATCTTA
1 GATATGACAATCTTA
24025568 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
24025585 GATATGA
1 GATATGA
24025592 TATGATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:24025593 original size:5 final size:5
Alignment explanation
Indices: 24025585--24025615 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
24025575 TACAATCTTA
24025585 GATAT GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT GATAT G
24025616 CAATCTTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (5 bp):
GATAT
Found at i:24025630 original size:36 final size:38
Alignment explanation
Indices: 24025516--24025633 Score: 118
Period size: 36 Copynumber: 3.1 Consensus size: 38
24025506 AATCTTTAAG
* * *
24025516 GATATGCAATCTTCGATATGATATGCAATCTT-AGATGT
1 GATATG-AATCATAGATATGATATGCAATCTTGAGATAT
*
24025554 GATATGCAATCTTAGATATGATA--CAATCTT-AGATAT
1 GATATG-AATCATAGATATGATATGCAATCTTGAGATAT
*
24025590 GATATGATATGATATGATATGATATGCAATCTTGACGATAT
1 GATATGA-ATCATA-GATATGATATGCAATCTTGA-GATAT
24025631 GAT
1 GAT
24025634 TTTGTAATCT
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
35 1 0.01
36 22 0.31
37 9 0.13
38 22 0.31
39 7 0.10
40 1 0.01
41 8 0.11
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (38 bp):
GATATGAATCATAGATATGATATGCAATCTTGAGATAT
Found at i:24036203 original size:2 final size:2
Alignment explanation
Indices: 24036196--24036230 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
24036186 AAGAGGGGTA
24036196 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24036231 AGATGTAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24037233 original size:2 final size:2
Alignment explanation
Indices: 24037226--24037266 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
24037216 TTTGATGTAC
24037226 TA TA 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 TA TA T
24037267 TTAAAATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24038536 original size:3 final size:3
Alignment explanation
Indices: 24038528--24038562 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
24038518 TCAAGTCCAA
24038528 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
24038563 ACCCAATACC
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:24038768 original size:2 final size:2
Alignment explanation
Indices: 24038761--24038787 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24038751 TAACAATTGT
24038761 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 T
24038788 GTATGTATAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24042609 original size:23 final size:23
Alignment explanation
Indices: 24042579--24042625 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
24042569 CCTCAAAGTT
24042579 TGAAAACCCTAGCTATTTAGTCC
1 TGAAAACCCTAGCTATTTAGTCC
24042602 TGAAAACCCTAGCTATTTAGTCC
1 TGAAAACCCTAGCTATTTAGTCC
24042625 T
1 T
24042626 TCCTACTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (23 bp):
TGAAAACCCTAGCTATTTAGTCC
Found at i:24043865 original size:85 final size:85
Alignment explanation
Indices: 24043769--24044000 Score: 315
Period size: 85 Copynumber: 2.7 Consensus size: 85
24043759 AAAAACCCAG
* *
24043769 TGGCAGTTTGTTTAAATTGCTAA-TATGTTGTGCACTCACAACAAGTGGCAGTAATTGCAAATAT
1 TGGCAGTTTGTTTAAATTGC-AACCATGTTGTGCACTCACAACAAGTGGCAGTAACTGCAAATAT
24043833 GTGACTCGTCCACAAACCAAA
65 GTGACTCGTCCACAAACCAAA
* *
24043854 TGGCAGTTTGTTTAATTTGCAACCATGTTATGCACTCACAACAAGTGGCAGTAACTGCAAATATG
1 TGGCAGTTTGTTTAAATTGCAACCATGTTGTGCACTCACAACAAGTGGCAGTAACTGCAAATATG
* * * *
24043919 TGGCTCGTCCCCAAACCTAG
66 TGACTCGTCCACAAACCAAA
* * * * *
24043939 TGGTAGATTGTTT-AATCTGCAACCATGTTGCGCACTCACAACAAGTGACAGTAACTGGAAAT
1 TGGCAGTTTGTTTAAAT-TGCAACCATGTTGTGCACTCACAACAAGTGGCAGTAACTGCAAAT
24044001 GTTTTTATCT
Statistics
Matches: 130, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
84 4 0.03
85 126 0.97
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (85 bp):
TGGCAGTTTGTTTAAATTGCAACCATGTTGTGCACTCACAACAAGTGGCAGTAACTGCAAATATG
TGACTCGTCCACAAACCAAA
Found at i:24048899 original size:24 final size:25
Alignment explanation
Indices: 24048846--24048893 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
24048836 TTGGCCATCT
24048846 CGAGCTTCCTGTTATATAGTTCTTG
1 CGAGCTTCCTGTTATATAGTTCTTG
24048871 CGAGCTTCCTGTTA-ATAGTTCTT
1 CGAGCTTCCTGTTATATAGTTCTT
24048894 CGGAGCATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.44
Consensus pattern (25 bp):
CGAGCTTCCTGTTATATAGTTCTTG
Found at i:24048985 original size:26 final size:26
Alignment explanation
Indices: 24048956--24049100 Score: 81
Period size: 26 Copynumber: 5.8 Consensus size: 26
24048946 CTTATGAGTG
24048956 TCCCGA-TATATGGCTCTTCGTGAGCT
1 TCCCGATTA-ATGGCTCTTCGTGAGCT
* * * *
24048982 TCCCAATTAAAGGCTCTTTGTGAGTT
1 TCCCGATTAATGGCTCTTCGTGAGCT
** *
24049008 TCCTTATTAATAGCTC-TC-TGGAGCT
1 TCCCGATTAATGGCTCTTCGT-GAGCT
* * *
24049033 TCCCGA-T-ATGGCTC-GCTTGAACT
1 TCCCGATTAATGGCTCTTCGTGAGCT
* * *
24049056 TCCCGA-TATATGTCTATCCG-GAGCT
1 TCCCGATTA-ATGGCTCTTCGTGAGCT
*
24049081 CCCCGATTAATGGCTCTTCG
1 TCCCGATTAATGGCTCTTCG
24049101 AAGCTACCCG
Statistics
Matches: 88, Mismatches: 24, Indels: 15
0.69 0.19 0.12
Matches are distributed among these distances:
23 18 0.20
24 3 0.03
25 31 0.35
26 34 0.39
27 2 0.02
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (26 bp):
TCCCGATTAATGGCTCTTCGTGAGCT
Found at i:24049765 original size:61 final size:61
Alignment explanation
Indices: 24049665--24049787 Score: 210
Period size: 61 Copynumber: 2.0 Consensus size: 61
24049655 GCCAAAATAG
* *
24049665 GGTACGAGGCATTATCGGACTTAATCATACATAATATGTAAAAATCGGGCTACAAAATTTC
1 GGTACGAGGCATTATCGGACTTAATCATACACAATATGTAAAAACCGGGCTACAAAATTTC
* *
24049726 GGTATGAGGCATTATTGGACTTAATCATACACAATATGTAAAAACCGGGCTACAAAATTTC
1 GGTACGAGGCATTATCGGACTTAATCATACACAATATGTAAAAACCGGGCTACAAAATTTC
24049787 G
1 G
24049788 CTCATATCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (61 bp):
GGTACGAGGCATTATCGGACTTAATCATACACAATATGTAAAAACCGGGCTACAAAATTTC
Found at i:24054914 original size:30 final size:30
Alignment explanation
Indices: 24054880--24054943 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
24054870 AATGACCGAA
* *
24054880 GAATGTGAACTTTCTGCTTACGACCGTCAC
1 GAATGTGAACTTTCTACTTACGACCATCAC
24054910 GAATGTGAACTTTCTACTTACGACCATCAC
1 GAATGTGAACTTTCTACTTACGACCATCAC
24054940 GAAT
1 GAAT
24054944 TAAATTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (30 bp):
GAATGTGAACTTTCTACTTACGACCATCAC
Found at i:24058031 original size:2 final size:2
Alignment explanation
Indices: 24058026--24058072 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
24058016 TATATGTGCT
24058026 TA TA TA TA TA 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 TA TA TA TA TA
24058068 T- TA TA
1 TA TA TA
24058073 GTTAACAAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24059170 original size:18 final size:19
Alignment explanation
Indices: 24059127--24059173 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
24059117 ACTTTCTTTC
* *
24059127 TTTCTTTCTTTCCTATCGG
1 TTTCTTTTTTTCCTATCCG
*
24059146 TTT-TTTTTTTCCTA-CCT
1 TTTCTTTTTTTCCTATCCG
24059163 TTTCTTTTTTT
1 TTTCTTTTTTT
24059174 GTGGCTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 4 0.17
18 17 0.71
19 3 0.12
ACGTcount: A:0.04, C:0.21, G:0.04, T:0.70
Consensus pattern (19 bp):
TTTCTTTTTTTCCTATCCG
Found at i:24062746 original size:18 final size:18
Alignment explanation
Indices: 24062709--24062748 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
24062699 ATCATGTGGT
* **
24062709 AGGCCGTGTAACAGTTTG
1 AGGCCATGTAACAGGATG
24062727 AGGCCATGTAACAGGATG
1 AGGCCATGTAACAGGATG
24062745 AGGC
1 AGGC
24062749 TGTGTGGTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.35, T:0.20
Consensus pattern (18 bp):
AGGCCATGTAACAGGATG
Found at i:24067257 original size:22 final size:22
Alignment explanation
Indices: 24067201--24067257 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
24067191 AAGTTAGTTT
* * *
24067201 TTTTGTTATTGTTTTGTTGTCA
1 TTTTGTTATTATTTTATTATCA
* **
24067223 TTTCGTTGCTATTTTATTATCA
1 TTTTGTTATTATTTTATTATCA
24067245 TTTTGTTATTATT
1 TTTTGTTATTATT
24067258 GTTTGAATAT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.14, C:0.07, G:0.12, T:0.67
Consensus pattern (22 bp):
TTTTGTTATTATTTTATTATCA
Found at i:24068113 original size:7 final size:7
Alignment explanation
Indices: 24068101--24068127 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
24068091 TACTCCACAG
24068101 TACACCA
1 TACACCA
24068108 TACACCA
1 TACACCA
24068115 TACACCA
1 TACACCA
24068122 TACACC
1 TACACC
24068128 CCTTTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.44, G:0.00, T:0.15
Consensus pattern (7 bp):
TACACCA
Found at i:24068674 original size:22 final size:22
Alignment explanation
Indices: 24068656--24068698 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24068646 TGATATTGTT
*
24068656 TTGCTGCCATTTTGTTATTATA
1 TTGCTACCATTTTGTTATTATA
* *
24068678 TTGCTACTATTTTGTTGTTAT
1 TTGCTACCATTTTGTTATTAT
24068699 TGTTTTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.16, C:0.12, G:0.14, T:0.58
Consensus pattern (22 bp):
TTGCTACCATTTTGTTATTATA
Found at i:24072347 original size:29 final size:30
Alignment explanation
Indices: 24072313--24072378 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
24072303 TAAGAATTAG
* *
24072313 ATTAAATTAGTTCTTCTATTATTAAATA-A
1 ATTAAATTAATTCTTCTACTATTAAATAGA
* *
24072342 ATTAAATTAATTTTTGTACTATTAAATAGA
1 ATTAAATTAATTCTTCTACTATTAAATAGA
24072372 ATTAAAT
1 ATTAAAT
24072379 AAATCTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 24 0.75
30 8 0.25
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (30 bp):
ATTAAATTAATTCTTCTACTATTAAATAGA
Found at i:24072487 original size:16 final size:16
Alignment explanation
Indices: 24072466--24072500 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
24072456 GCAAATGAAA
24072466 AAAAAAAGTATTTTCC
1 AAAAAAAGTATTTTCC
24072482 AAAAAAAGTATTTTCC
1 AAAAAAAGTATTTTCC
24072498 AAA
1 AAA
24072501 TTCTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (16 bp):
AAAAAAAGTATTTTCC
Found at i:24079029 original size:42 final size:42
Alignment explanation
Indices: 24078932--24079094 Score: 193
Period size: 42 Copynumber: 3.9 Consensus size: 42
24078922 TTCTGCACCA
* * * *
24078932 ATGCCATATCCCAAATATGGTCTTACATGTAA-CTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * *
24078973 ATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATACCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* **
24079016 ATGCCATATCCCAGATATGATCTTACACGAAATCTCATATTA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
24079058 ATGCCATATCCAAGATATGGTTTTACACGAAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCA
24079095 AAAACCCTAA
Statistics
Matches: 102, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
41 5 0.05
42 85 0.83
43 12 0.12
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:24083049 original size:22 final size:23
Alignment explanation
Indices: 24083023--24083068 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
24083013 CAACCAAACC
24083023 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
24083045 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
24083068 A
1 A
24083069 CGTCATCTCA
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:24083074 original size:23 final size:23
Alignment explanation
Indices: 24083030--24083074 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
24083020 ACCAATTCAA
*
24083030 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
24083053 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
24083075 CTCATACCCA
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:24086943 original size:2 final size:2
Alignment explanation
Indices: 24086936--24086960 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24086926 TCTTTTGGGG
24086936 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
24086961 GCTACTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:24087092 original size:23 final size:24
Alignment explanation
Indices: 24087064--24087108 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
24087054 AGAAAAGATC
24087064 TTTCTTTCCA-GTGTTTGTTCCCT
1 TTTCTTTCCAGGTGTTTGTTCCCT
* *
24087087 TTTCTTTGCAGGTTTTTGTTCC
1 TTTCTTTCCAGGTGTTTGTTCC
24087109 TTGATTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.04, C:0.22, G:0.16, T:0.58
Consensus pattern (24 bp):
TTTCTTTCCAGGTGTTTGTTCCCT
Found at i:24094761 original size:15 final size:16
Alignment explanation
Indices: 24094718--24094762 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
24094708 GCTCTTTTAG
24094718 ATAATTTTAAAT-TTT
1 ATAATTTTAAATATTT
*
24094733 ATAAGTTATAAATATTT
1 ATAA-TTTTAAATATTT
24094750 A-AATTTTAAATAT
1 ATAATTTTAAATAT
24094763 AATAATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 13 0.50
16 9 0.35
17 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATAATTTTAAATATTT
Found at i:24095102 original size:27 final size:28
Alignment explanation
Indices: 24095063--24095117 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
24095053 AAATTCAAAT
* * *
24095063 AATAAACTCATTATTG-TCCAAACTCAA
1 AATAAACTAATTATAGCTCAAAACTCAA
24095090 AATAAACTAATTATAGCTCAAAACTCAA
1 AATAAACTAATTATAGCTCAAAACTCAA
24095118 GTCCAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.27
Consensus pattern (28 bp):
AATAAACTAATTATAGCTCAAAACTCAA
Found at i:24095588 original size:18 final size:20
Alignment explanation
Indices: 24095565--24095605 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
24095555 TATCATAATC
24095565 TATAATA-TAATA-ATTATA
1 TATAATAGTAATACATTATA
*
24095583 TATAATAGTATTACATTATA
1 TATAATAGTAATACATTATA
24095603 TAT
1 TAT
24095606 TACTTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 4 0.20
20 9 0.45
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
TATAATAGTAATACATTATA
Found at i:24098915 original size:18 final size:18
Alignment explanation
Indices: 24098894--24098928 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
24098884 AATAAATTAA
*
24098894 AGTATAATAATAAAAGTT
1 AGTATAATAAAAAAAGTT
24098912 AGTATAATAAAAAAAGT
1 AGTATAATAAAAAAAGT
24098929 AAAGAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (18 bp):
AGTATAATAAAAAAAGTT
Found at i:24098937 original size:17 final size:18
Alignment explanation
Indices: 24098917--24098950 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24098907 AAGTTAGTAT
24098917 AATAAAAAAAG-TAAAGA
1 AATAAAAAAAGATAAAGA
*
24098934 AATAAAGAAAGATAAAG
1 AATAAAAAAAGATAAAG
24098951 CCATACAAAT
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:0.74, C:0.00, G:0.15, T:0.12
Consensus pattern (18 bp):
AATAAAAAAAGATAAAGA
Found at i:24098983 original size:14 final size:15
Alignment explanation
Indices: 24098962--24099004 Score: 63
Period size: 14 Copynumber: 2.9 Consensus size: 15
24098952 CATACAAATT
24098962 AGAAAGAAAAGAAAA
1 AGAAAGAAAAGAAAA
24098977 A-AAAGAAAAAGAAAA
1 AGAAAG-AAAAGAAAA
24098992 AGAAAG-AAAGAAA
1 AGAAAGAAAAGAAA
24099005 GGAGAAAGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 11 0.42
15 11 0.42
16 4 0.15
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (15 bp):
AGAAAGAAAAGAAAA
Found at i:24099011 original size:21 final size:21
Alignment explanation
Indices: 24098964--24099004 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
24098954 TACAAATTAG
24098964 AAAG-AAAAGAAAAAAAAGAA
1 AAAGAAAAAGAAAAAAAAGAA
*
24098984 AAAGAAAAAG-AAAGAAAGAA
1 AAAGAAAAAGAAAAAAAAGAA
24099004 A
1 A
24099005 GGAGAAAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAGAAAAAAAAGAA
Found at i:24105289 original size:12 final size:12
Alignment explanation
Indices: 24105272--24105303 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
24105262 TCTGACTTGA
24105272 GCCACACGGTCG
1 GCCACACGGTCG
24105284 GCCACACGGTCG
1 GCCACACGGTCG
24105296 GCCACACG
1 GCCACACG
24105304 CCTGTGTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.19, C:0.44, G:0.31, T:0.06
Consensus pattern (12 bp):
GCCACACGGTCG
Found at i:24106838 original size:58 final size:57
Alignment explanation
Indices: 24106701--24106839 Score: 143
Period size: 57 Copynumber: 2.4 Consensus size: 57
24106691 AGCTTAGTCG
** ** * * *
24106701 GGATTACCAGTCCAGGCTAAATCCTTTTTATGATATATGCTCTAAAGAACTTGATCT
1 GGATTACCAGTCCAGGCTAAATCCAATCCATAACATATGCTCGAAAGAACTTGATCT
* * * * * *
24106758 GGATTACCCGTCCGGGCCAAATCCAATCCATAACATATGCTCGAGAGGACTTATATCT
1 GGATTACCAGTCCAGGCTAAATCCAATCCATAACATATGCTCGAAAGAACTT-GATCT
*
24106816 GGATTACCAGTCCAAGCTAAATCC
1 GGATTACCAGTCCAGGCTAAATCC
24106840 TTTTTGTAAT
Statistics
Matches: 64, Mismatches: 17, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
57 40 0.62
58 24 0.38
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (57 bp):
GGATTACCAGTCCAGGCTAAATCCAATCCATAACATATGCTCGAAAGAACTTGATCT
Found at i:24112407 original size:18 final size:18
Alignment explanation
Indices: 24112377--24112416 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
24112367 TACAGGGACA
24112377 AAGG-TAAAAGAAAGCCT
1 AAGGATAAAAGAAAGCCT
*
24112394 AAGGATAAAGGAAAGCCT
1 AAGGATAAAAGAAAGCCT
24112412 AAGGA
1 AAGGA
24112417 CAATGTCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.53, C:0.10, G:0.28, T:0.10
Consensus pattern (18 bp):
AAGGATAAAAGAAAGCCT
Found at i:24114532 original size:46 final size:46
Alignment explanation
Indices: 24114482--24114657 Score: 220
Period size: 46 Copynumber: 3.8 Consensus size: 46
24114472 TGGTTGAGCA
24114482 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
24114528 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA---A-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
*
24114573 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
24114621 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24114658 GCGGGTTACA
Statistics
Matches: 115, Mismatches: 3, Indels: 24
0.81 0.02 0.17
Matches are distributed among these distances:
42 3 0.03
43 6 0.05
45 3 0.03
46 64 0.56
47 29 0.25
48 1 0.01
50 6 0.05
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:24114638 original size:93 final size:93
Alignment explanation
Indices: 24114479--24114650 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
24114469 GGATGGTTGA
24114479 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
24114544 TGAGTCCGAGTTCAAGAGATGTAACTAG
66 TGAGTCCGAGTTCAAGAGATGTAACTAG
* *
24114572 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGAG
24114636 TTGAGTCCGAGTTCA
65 TTGAGTCCGAGTTCA
24114651 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCAAGAGATGTAACTAG
Found at i:24116292 original size:37 final size:37
Alignment explanation
Indices: 24116251--24116322 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
24116241 CGCATTATAT
24116251 GTACAAACTTGTTGTACACAAATAGAGAACATAGTAC
1 GTACAAACTTGTTGTACACAAATAGAGAACATAGTAC
*
24116288 GTACAAACTTGTTGTATACAAATAGAGAACATAGT
1 GTACAAACTTGTTGTACACAAATAGAGAACATAGT
24116323 TAAAATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (37 bp):
GTACAAACTTGTTGTACACAAATAGAGAACATAGTAC
Found at i:24118193 original size:23 final size:23
Alignment explanation
Indices: 24118163--24118212 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
24118153 AGAGGTCTTC
*
24118163 TTAAAGACATTGGAGTTCGAAAG
1 TTAAAGACATTGGAGTTCAAAAG
24118186 TTAAAGACATTGGAGTTCAAAAG
1 TTAAAGACATTGGAGTTCAAAAG
24118209 TTAA
1 TTAA
24118213 GTTTTTGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (23 bp):
TTAAAGACATTGGAGTTCAAAAG
Found at i:24121133 original size:20 final size:20
Alignment explanation
Indices: 24121105--24121143 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24121095 TTGTACTGGA
* * *
24121105 TTTGTACTTTGGTGTCTCTG
1 TTTGCACTTCGGTGCCTCTG
24121125 TTTGCACTTCGGTGCCTCT
1 TTTGCACTTCGGTGCCTCT
24121144 ATTATGCATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.05, C:0.23, G:0.23, T:0.49
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTG
Found at i:24122129 original size:24 final size:24
Alignment explanation
Indices: 24122094--24122147 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
24122084 AATGATGCAT
*
24122094 ACGGCCTGGGACACGAGTTGTCAC
1 ACGGCCTAGGACACGAGTTGTCAC
* *
24122118 ACGGCCTAGGACATGGGTTGTCAC
1 ACGGCCTAGGACACGAGTTGTCAC
24122142 ACGGCC
1 ACGGCC
24122148 GTGTACCACA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (24 bp):
ACGGCCTAGGACACGAGTTGTCAC
Found at i:24122834 original size:33 final size:34
Alignment explanation
Indices: 24122797--24122888 Score: 79
Period size: 33 Copynumber: 2.8 Consensus size: 34
24122787 TAGTTATGTG
24122797 TATTTACAATGTTTAGATGATGATTC-AT-TCATA
1 TATTTACAATGTTTAGATGATGATTCAATGTC-TA
* * *
24122830 TATTTTC--TGCTTTATATTGATGA--CAATGGTCTG
1 TATTTACAATG-TTTAGA-TGATGATTCAAT-GTCTA
24122863 TATTTACAATGTTTAGATGATGATTC
1 TATTTACAATGTTTAGATGATGATTC
24122889 GTCTCAATCA
Statistics
Matches: 45, Mismatches: 5, Indels: 16
0.68 0.08 0.24
Matches are distributed among these distances:
31 3 0.07
32 7 0.16
33 25 0.56
34 7 0.16
35 3 0.07
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (34 bp):
TATTTACAATGTTTAGATGATGATTCAATGTCTA
Found at i:24123521 original size:2 final size:2
Alignment explanation
Indices: 24123514--24123561 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
24123504 AGATTATAAC
24123514 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
24123556 CA CA CA
1 CA CA CA
24123562 TATATATATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:24126220 original size:46 final size:43
Alignment explanation
Indices: 24126165--24126332 Score: 124
Period size: 46 Copynumber: 3.7 Consensus size: 43
24126155 TTTGTGTGCT
* *
24126165 AGTGCAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGCC
1 AGTGTAAGACATG-CTGGGACATGCATCGACCTCA-TA-GAGAGCC
* * * *
24126211 AGTGTAAGACCATGCTTGGGACATGGCATCTGTA-TTGAGACGAGAGCT
1 AGTGTAAGA-CATGC-TGGGACAT-GCATC-G-ACCTCATA-GAGAGCC
* *
24126259 AGTGTGAGACATGCTGAGACATGCATCGACCTCGAGTAGTA-AGCC
1 AGTGTAAGACATGCTGGGACATGCATCGACCTC-A-TAG-AGAGCC
*
24126304 AGTGTGAGACATGTCTGGGACATGCATCG
1 AGTGTAAGACATG-CTGGGACATGCATCG
24126333 GCTACGAGAT
Statistics
Matches: 98, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 23 0.23
46 32 0.33
47 17 0.17
48 20 0.20
49 2 0.02
50 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (43 bp):
AGTGTAAGACATGCTGGGACATGCATCGACCTCATAGAGAGCC
Found at i:24127489 original size:18 final size:17
Alignment explanation
Indices: 24127466--24127525 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 17
24127456 ACTCCCCCTA
*
24127466 TTTACTTTGCCTCAAACT
1 TTTACTTT-CCTAAAACT
*
24127484 TTTACTCTCC-AAAACTT
1 TTTACTTTCCTAAAAC-T
* *
24127501 TTTATTTTCCCTTAAACT
1 TTTACTTT-CCTAAAACT
24127519 TTTACTT
1 TTTACTT
24127526 CTCACTCTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
16 4 0.12
17 9 0.27
18 16 0.48
19 4 0.12
ACGTcount: A:0.23, C:0.25, G:0.02, T:0.50
Consensus pattern (17 bp):
TTTACTTTCCTAAAACT
Found at i:24143935 original size:39 final size:39
Alignment explanation
Indices: 24143881--24143957 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
24143871 AATTTCACAT
* *
24143881 TGGTACAGATGATAGTTTGTACTTTTGAAATAAATTATA
1 TGGTACAGATGATAGTTTCTACTTTTGAAACAAATTATA
*
24143920 TGGTATAGATGATAGTTTCTACTTTTGAAACAAATTAT
1 TGGTACAGATGATAGTTTCTACTTTTGAAACAAATTAT
24143958 GTATTTCGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (39 bp):
TGGTACAGATGATAGTTTCTACTTTTGAAACAAATTATA
Found at i:24153040 original size:44 final size:42
Alignment explanation
Indices: 24152982--24153133 Score: 137
Period size: 44 Copynumber: 3.5 Consensus size: 42
24152972 ATGTATTATT
* **
24152982 GTGTAAGACTACGTCTGGGATGTTGGCATCG-ATTTGGTATTTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGTATTT-G-ATTT-C
24153026 GTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTC
* * * * *
24153068 GTGTAAGACC-CTATATGGGACAGTGGCATTGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGATTTC
* ** *
24153111 ATACAAGACAACGTCTGGGACAT
1 GTGTAAGACCACGTCTGGGACAT
24153134 CAGAATTGTA
Statistics
Matches: 89, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 28 0.31
44 30 0.34
45 4 0.04
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTC
Found at i:24153087 original size:42 final size:43
Alignment explanation
Indices: 24153004--24153108 Score: 117
Period size: 42 Copynumber: 2.4 Consensus size: 43
24152994 GTCTGGGATG
* *
24153004 TTGGCATCG-ATTTGGTATTTACGTGTAAGACCACGTCTGGGACA
1 TTGGCATCGTATTT-G-ATTTACGTGTAAGACCACATATGGGACA
24153048 TTGGCATCGTATTTGATTT-CGTGTAAGACC-CTATATGGGACA
1 TTGGCATCGTATTTGATTTACGTGTAAGACCAC-ATATGGGACA
* *
24153090 GTGGCATTGATATTTGATT
1 TTGGCATCG-TATTTGATT
24153109 ACATACAAGA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
41 1 0.02
42 26 0.48
43 13 0.24
44 10 0.19
45 4 0.07
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (43 bp):
TTGGCATCGTATTTGATTTACGTGTAAGACCACATATGGGACA
Found at i:24156878 original size:6 final size:6
Alignment explanation
Indices: 24156858--24156901 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
24156848 GATAATACCC
*
24156858 TTTCTT TCT-TT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
24156902 ACATTGCTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 4 0.11
6 31 0.89
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:24166492 original size:40 final size:40
Alignment explanation
Indices: 24166435--24166510 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
24166425 ACACACCATG
*
24166435 TGGGGATAAAATCGACCCACCTATCCCTACAAACCAAATA
1 TGGGGATAAAATCGACCCACCTAACCCTACAAACCAAATA
* * *
24166475 TGGGGATAAAATTGACCCATCTAACCCTACATACCA
1 TGGGGATAAAATCGACCCACCTAACCCTACAAACCA
24166511 TAAAGTATCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.38, C:0.29, G:0.13, T:0.20
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCTAACCCTACAAACCAAATA
Found at i:24172931 original size:11 final size:11
Alignment explanation
Indices: 24172917--24172946 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
24172907 ATCAAAATTA
24172917 TTTCAAATCAT
1 TTTCAAATCAT
24172928 TTTCAAATCAT
1 TTTCAAATCAT
24172939 TTCTCAAA
1 TT-TCAAA
24172947 AAACCATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (11 bp):
TTTCAAATCAT
Found at i:24174120 original size:20 final size:20
Alignment explanation
Indices: 24174095--24174134 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
24174085 CTAAAAAATG
24174095 GGCTCACAGGCTCATGTGGC
1 GGCTCACAGGCTCATGTGGC
24174115 GGCTCACAGGCTCATGTGGC
1 GGCTCACAGGCTCATGTGGC
24174135 CTACCCATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.30, G:0.35, T:0.20
Consensus pattern (20 bp):
GGCTCACAGGCTCATGTGGC
Found at i:24185450 original size:22 final size:22
Alignment explanation
Indices: 24185425--24185500 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
24185415 TATAAAACCT
24185425 AATAAAAATAAACTTAAAGA-AA
1 AATAAAAATAAACTTAAA-ATAA
**
24185447 AATAAAAATAGTCTTAAAATAA
1 AATAAAAATAAACTTAAAATAA
* *
24185469 AATAAAAGTAAA---AACATAA
1 AATAAAAATAAACTTAAAATAA
24185488 AATAATAAATAAA
1 AATAA-AAATAAA
24185501 AGTTTTTAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.24
20 6 0.13
21 1 0.02
22 27 0.60
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (22 bp):
AATAAAAATAAACTTAAAATAA
Found at i:24190565 original size:18 final size:18
Alignment explanation
Indices: 24190542--24190577 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24190532 ACTTGTTAGA
* *
24190542 AGAAAATAAATGAAAATT
1 AGAAAAGAAATAAAAATT
24190560 AGAAAAGAAATAAAAATT
1 AGAAAAGAAATAAAAATT
24190578 TAAATTGCAA
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:0.69, C:0.00, G:0.11, T:0.19
Consensus pattern (18 bp):
AGAAAAGAAATAAAAATT
Found at i:24197293 original size:3 final size:3
Alignment explanation
Indices: 24197199--24197276 Score: 138
Period size: 3 Copynumber: 26.0 Consensus size: 3
24197189 CCCTAAAACA
*
24197199 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
24197247 AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
24197277 CAGCAGCATA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:24199943 original size:13 final size:13
Alignment explanation
Indices: 24199925--24199949 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24199915 ATATCTTCAA
24199925 AAATTCAAATTAC
1 AAATTCAAATTAC
24199938 AAATTCAAATTA
1 AAATTCAAATTA
24199950 ACCGTTCATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATTCAAATTAC
Found at i:24204445 original size:70 final size:69
Alignment explanation
Indices: 24204313--24204519 Score: 308
Period size: 70 Copynumber: 3.0 Consensus size: 69
24204303 TTTCTACGAA
* *
24204313 TATAGTGATTGGTAGTAATTCCACATATGTTGT-GACTACCGTAGCTCTGTATGAGCATCGAGGT
1 TATAGTGATTGGTAGTAATT-CTCATATGTTGTGGACTACCGTAGCTCTGTGTGAGCATCGAGGT
24204377 ATAAG
65 ATAAG
* * *
24204382 TCTGGTGATTGGTAGTAATTCTGCATATGTTGTGGACTATCGTAGCTCTGTGTGAGCATCGAGGT
1 TATAGTGATTGGTAGTAATTCT-CATATGTTGTGGACTACCGTAGCTCTGTGTGAGCATCGAGGT
24204447 ATAAG
65 ATAAG
* * *
24204452 TATAGTGATTAGTAGTAATTCCTCATATGTTGTGGACTACCGTAGCTCTATGTGAGCATCGAAGT
1 TATAGTGATTGGTAGTAATT-CTCATATGTTGTGGACTACCGTAGCTCTGTGTGAGCATCGAGGT
24204517 ATA
65 ATA
24204520 TGATTTTCCC
Statistics
Matches: 124, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
68 1 0.01
69 28 0.23
70 93 0.75
71 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (69 bp):
TATAGTGATTGGTAGTAATTCTCATATGTTGTGGACTACCGTAGCTCTGTGTGAGCATCGAGGTA
TAAG
Found at i:24205900 original size:10 final size:10
Alignment explanation
Indices: 24205881--24205930 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
24205871 TTAAATTCTA
24205881 AAAGATAAAT
1 AAAGATAAAT
24205891 ACAA-ATAAAT
1 A-AAGATAAAT
*
24205901 AAAGATAATT
1 AAAGATAAAT
24205911 AAAGATAAAT
1 AAAGATAAAT
*
24205921 AAAAATAAAT
1 AAAGATAAAT
24205931 CCTCAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:24207766 original size:12 final size:11
Alignment explanation
Indices: 24207758--24207818 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 11
24207748 AAAATAAAGT
24207758 AATAAATAATAA
1 AATAAATAAT-A
24207770 AATAAAATAATA
1 AAT-AAATAATA
*
24207782 AAT-ACTAATAA
1 AATAAATAAT-A
*
24207793 AATGAAATAAAA
1 AAT-AAATAATA
24207805 TAATAAATAATA
1 -AATAAATAATA
24207817 AA
1 AA
24207819 AATTAAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
10 5 0.12
11 6 0.15
12 15 0.38
13 14 0.35
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (11 bp):
AATAAATAATA
Found at i:24207794 original size:23 final size:20
Alignment explanation
Indices: 24207748--24207811 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
24207738 TCAATATCCA
*
24207748 AAAATAAAGTAATAAATAAT
1 AAAATAAAATAATAAATAAT
*
24207768 AAAATAAAATAATAAATACT
1 AAAATAAAATAATAAATAAT
24207788 --AATAAAATGAAATAAAATAAT
1 AAAATAAAAT--AAT-AAATAAT
24207809 AAA
1 AAA
24207812 TAATAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
18 8 0.22
20 21 0.58
21 6 0.17
23 1 0.03
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAATAAAATAATAAATAAT
Found at i:24207816 original size:10 final size:10
Alignment explanation
Indices: 24207757--24207821 Score: 50
Period size: 10 Copynumber: 6.8 Consensus size: 10
24207747 AAAAATAAAG
24207757 TAATAAATAA
1 TAATAAATAA
*
24207767 TAA-AATAAAA
1 TAATAA-ATAA
*
24207777 TAATAAATAC
1 TAATAAATAA
*
24207787 TAATAAAATGA
1 TAAT-AAATAA
24207798 -AAT-AA-AA
1 TAATAAATAA
24207805 TAATAAATAA
1 TAATAAATAA
24207815 TAA-AAAT
1 TAATAAAT
24207822 TAAGAAAAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
7 1 0.02
8 5 0.12
9 8 0.19
10 23 0.53
11 6 0.14
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (10 bp):
TAATAAATAA
Found at i:24207840 original size:35 final size:35
Alignment explanation
Indices: 24207773--24207849 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
24207763 ATAATAAAAT
* * *
24207773 AAAATAATAAATACTAATAAAATGAAATAAAATAA
1 AAAATAATAAAAACTAAGAAAATGAAAAAAAATAA
* *
24207808 TAAATAATAAAAATTAAGAAAA-GTAAAAAAAATAA
1 AAAATAATAAAAACTAAGAAAATG-AAAAAAAATAA
24207843 AAAATAA
1 AAAATAA
24207850 AGGTTGGGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
34 1 0.03
35 34 0.97
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (35 bp):
AAAATAATAAAAACTAAGAAAATGAAAAAAAATAA
Found at i:24213631 original size:33 final size:33
Alignment explanation
Indices: 24213594--24213659 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
24213584 TTGAGCCTAC
24213594 TAATTTGAGCTATTTATGTCTTTTTATCTTTTA
1 TAATTTGAGCTATTTATGTCTTTTTATCTTTTA
24213627 TAATTTGAGCTATTTATGTCTTTTTATCTTTTA
1 TAATTTGAGCTATTTATGTCTTTTTATCTTTTA
24213660 GGGACTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.61
Consensus pattern (33 bp):
TAATTTGAGCTATTTATGTCTTTTTATCTTTTA
Found at i:24221692 original size:24 final size:24
Alignment explanation
Indices: 24221665--24221823 Score: 273
Period size: 24 Copynumber: 6.6 Consensus size: 24
24221655 CTTATTATGT
* * *
24221665 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
24221689 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
24221713 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
24221737 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
24221761 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
24221785 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
24221809 TCGCACACATAGTGC
1 TCGCACACATAGTGC
24221824 ATTTGAGATA
Statistics
Matches: 131, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 131 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:24221699 original size:48 final size:47
Alignment explanation
Indices: 24221643--24221823 Score: 245
Period size: 48 Copynumber: 3.8 Consensus size: 47
24221633 ACCGAATGTG
* ** * * *
24221643 GCACACATAGTGCTTATTATGTTCGCACACATAGAGCTATAGCAAATC
1 GCACACATAGTGCTTAGTA-AATCGCACACATAGTGCCATAGTAAATC
24221691 GCACACATAGTGCTATAGTAAATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATCGCACACATAGTGCCATAGTAAATC
*
24221739 GCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATCGCACACATAGTGCCATAGTAAATC
* *
24221787 GCACACATAGTGCCATAGTGAATCGCACACATAGTGC
1 GCACACATAGTG-CTTAGTAAATCGCACACATAGTGC
24221824 ATTTGAGATA
Statistics
Matches: 123, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
48 118 0.96
49 5 0.04
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (47 bp):
GCACACATAGTGCTTAGTAAATCGCACACATAGTGCCATAGTAAATC
Found at i:24233698 original size:24 final size:24
Alignment explanation
Indices: 24233671--24233781 Score: 186
Period size: 24 Copynumber: 4.6 Consensus size: 24
24233661 CTTATTATGT
* * *
24233671 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
24233695 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
24233719 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
24233743 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
24233767 TCGCACACATAGTGC
1 TCGCACACATAGTGC
24233782 ATTTGAGATA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 83 1.00
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:24235852 original size:30 final size:30
Alignment explanation
Indices: 24235817--24235890 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
24235807 ATGATACATC
* * *
24235817 CACACGGCCATTCGAGGCGGCTGTGGGAGA
1 CACACGGCCATTCAAGGCGGCCGTGGAAGA
24235847 CACACGGCCATTCAAGGCGGCCGTGGAAGA
1 CACACGGCCATTCAAGGCGGCCGTGGAAGA
24235877 CACACGGCC-TTCAA
1 CACACGGCCATTCAA
24235891 CATGGGCGTG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 5 0.12
30 36 0.88
ACGTcount: A:0.24, C:0.31, G:0.32, T:0.12
Consensus pattern (30 bp):
CACACGGCCATTCAAGGCGGCCGTGGAAGA
Found at i:24236538 original size:34 final size:34
Alignment explanation
Indices: 24236471--24236538 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
24236461 AAACCAGCCA
* *
24236471 CCCTTTTCTTCTCTATTTTTCTTTCTTTTCTTTC
1 CCCTTTTCCTCTCTATTTTTCTTTCTTTCCTTTC
24236505 CCCTTTCTCCTCTCT-TTTTTCTTT-TCTTCCTTTC
1 CCCTTT-TCCTCTCTATTTTTCTTTCT-TTCCTTTC
24236539 TCTCCTCTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 1 0.03
34 22 0.73
35 7 0.23
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (34 bp):
CCCTTTTCCTCTCTATTTTTCTTTCTTTCCTTTC
Found at i:24236544 original size:29 final size:30
Alignment explanation
Indices: 24236492--24236562 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 30
24236482 TCTATTTTTC
24236492 TTTCTTTTCTTTCCCCTTTCTCCTCTCTT-T
1 TTTCTTTTC-TTCCCCTTTCTCCTCTCTTCT
* *
24236522 TTTCTTTTCTT-CCTTTCTCTCCTCTGTTCT
1 TTTCTTTTCTTCCCCTT-TCTCCTCTCTTCT
24236552 TTCTCTTTTCT
1 TT-TCTTTTCT
24236563 CCTCTCTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
28 4 0.11
29 12 0.33
30 12 0.33
31 8 0.22
ACGTcount: A:0.00, C:0.34, G:0.01, T:0.65
Consensus pattern (30 bp):
TTTCTTTTCTTCCCCTTTCTCCTCTCTTCT
Found at i:24236565 original size:21 final size:22
Alignment explanation
Indices: 24236534--24236574 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
24236524 TCTTTTCTTC
*
24236534 CTTTCTCTCCTCTGTTCTTTCT
1 CTTTCTCTCCTCTCTTCTTTCT
24236556 CTTT-TCTCCTCTCTTCTTT
1 CTTTCTCTCCTCTCTTCTTT
24236575 TTTTCCTCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.00, C:0.37, G:0.02, T:0.61
Consensus pattern (22 bp):
CTTTCTCTCCTCTCTTCTTTCT
Found at i:24238069 original size:29 final size:29
Alignment explanation
Indices: 24238041--24238142 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
24238031 CCTCCGAGCT
** * * *
24238041 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
24238070 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
24238099 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
24238128 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
24238143 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:24246092 original size:29 final size:29
Alignment explanation
Indices: 24246064--24246165 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
24246054 CCTCCGAGCT
** * * *
24246064 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
24246093 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
24246122 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
24246151 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
24246166 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:24250796 original size:33 final size:33
Alignment explanation
Indices: 24250757--24250819 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
24250747 AGTAAACCCC
*
24250757 TTTGAGCCTTAACTATTATTTCTTGATTTTCCT
1 TTTGAGCCTTAACTATTATTTCTTAATTTTCCT
24250790 TTTGAGCCTTAACTATTATTTCTTAATTTT
1 TTTGAGCCTTAACTATTATTTCTTAATTTT
24250820 TCCCTTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.21, C:0.16, G:0.08, T:0.56
Consensus pattern (33 bp):
TTTGAGCCTTAACTATTATTTCTTAATTTTCCT
Found at i:24251876 original size:30 final size:30
Alignment explanation
Indices: 24251842--24251902 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
24251832 ACACGGCCTA
24251842 GGCAGTTCCACATGGGTAATCCACACACCC
1 GGCAGTTCCACATGGGTAATCCACACACCC
* *
24251872 GGCAGTTCCATATGGGTAATCCACACGCCC
1 GGCAGTTCCACATGGGTAATCCACACACCC
24251902 G
1 G
24251903 TGTGTGACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.34, G:0.23, T:0.18
Consensus pattern (30 bp):
GGCAGTTCCACATGGGTAATCCACACACCC
Found at i:24253619 original size:10 final size:10
Alignment explanation
Indices: 24253600--24253659 Score: 86
Period size: 10 Copynumber: 6.0 Consensus size: 10
24253590 TTAAATTCTA
24253600 AAAGATAAAT
1 AAAGATAAAT
24253610 ACAA-ATAAAT
1 A-AAGATAAAT
*
24253620 AAAGATAATT
1 AAAGATAAAT
24253630 AAAGATAAAT
1 AAAGATAAAT
24253640 AAAGATAAAT
1 AAAGATAAAT
*
24253650 AAAAATAAAT
1 AAAGATAAAT
24253660 CCTAAAATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
9 2 0.04
10 41 0.91
11 2 0.04
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:24255098 original size:95 final size:95
Alignment explanation
Indices: 24254935--24255126 Score: 384
Period size: 95 Copynumber: 2.0 Consensus size: 95
24254925 TCGGCCATGT
24254935 GAGCCACACGGCCTAACCACATGGGCGTGTGTGCCCTGTACCTAAGAAAATTTTAAAATTTTAGG
1 GAGCCACACGGCCTAACCACATGGGCGTGTGTGCCCTGTACCTAAGAAAATTTTAAAATTTTAGG
24255000 AAAAATTCTTAGAGTTTCTGGTTTAGCCTC
66 AAAAATTCTTAGAGTTTCTGGTTTAGCCTC
24255030 GAGCCACACGGCCTAACCACATGGGCGTGTGTGCCCTGTACCTAAGAAAATTTTAAAATTTTAGG
1 GAGCCACACGGCCTAACCACATGGGCGTGTGTGCCCTGTACCTAAGAAAATTTTAAAATTTTAGG
24255095 AAAAATTCTTAGAGTTTCTGGTTTAGCCTC
66 AAAAATTCTTAGAGTTTCTGGTTTAGCCTC
24255125 GA
1 GA
24255127 TTAATTTCTA
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 97 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (95 bp):
GAGCCACACGGCCTAACCACATGGGCGTGTGTGCCCTGTACCTAAGAAAATTTTAAAATTTTAGG
AAAAATTCTTAGAGTTTCTGGTTTAGCCTC
Found at i:24257006 original size:31 final size:32
Alignment explanation
Indices: 24256971--24257039 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
24256961 TTTAACATCC
*
24256971 CAGTGACTT-AAAT-AAAAGCTTTCGAATAATT
1 CAGTGACTTAAAATGAAAA-CTTTCAAATAATT
24257002 CAGTGACTTAAAATGAAAACTTTCAAATAATT
1 CAGTGACTTAAAATGAAAACTTTCAAATAATT
24257034 CAGTGA
1 CAGTGA
24257040 TCATTTGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
31 9 0.26
32 22 0.63
33 4 0.11
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (32 bp):
CAGTGACTTAAAATGAAAACTTTCAAATAATT
Found at i:24261189 original size:2 final size:2
Alignment explanation
Indices: 24261182--24261209 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24261172 GTTTTCCTTT
24261182 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
24261210 GATTTCCTTT
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):
TA
Found at i:24261402 original size:23 final size:23
Alignment explanation
Indices: 24261366--24261425 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
24261356 ACATACAATC
* * *
24261366 AATATTATATTTTAAATTATTAT
1 AATATAATAATTTAAATTAATAT
*
24261389 AATATAATAATTTAACTTAATAT
1 AATATAATAATTTAAATTAATAT
24261412 -AT-TAATAA-TTAAAT
1 AATATAATAATTTAAAT
24261426 GAAATTCACT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 5 0.16
21 6 0.19
22 2 0.06
23 19 0.59
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AATATAATAATTTAAATTAATAT
Found at i:24263162 original size:43 final size:43
Alignment explanation
Indices: 24263099--24263377 Score: 307
Period size: 43 Copynumber: 6.6 Consensus size: 43
24263089 GTGTAAAAAG
* *
24263099 CGCCGCTAAAGAACGTGACCTTTAGGGGCACTTTTCATACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCATACAAA
* *
24263142 CACCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCACACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCATACAAA
* * * * * *
24263185 TGTCGCTAAAGAACATGACATTTAGCGGCGCTTTTTACACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCATACAAA
* *
24263228 CGTCGCTAAAGAATGTGACCTTTAGCGGCGCTTTTC--AC--A
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCATACAAA
* * * * *
24263267 CACCGCTAAAGAACCTGACATTTAGTGGCGCTTTTC-TAAAAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCAT-ACAAA
* * *
24263310 CGCCGCTATAGAACGTGACCTTTGGTGGCGCTTTTCATACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCATACAAA
* * *
24263353 CGTCGCTAAAGAACCTGACATTTAG
1 CGCCGCTAAAGAACGTGACCTTTAG
24263378 AAAAGTGCCG
Statistics
Matches: 198, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
39 31 0.16
41 3 0.02
43 163 0.82
44 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (43 bp):
CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCATACAAA
Found at i:24263219 original size:86 final size:85
Alignment explanation
Indices: 24263102--24263377 Score: 344
Period size: 86 Copynumber: 3.3 Consensus size: 85
24263092 TAAAAAGCGC
* * * * *
24263102 CGCTAAAGAACGTGACCTTTAGGGGCACTTTTCATACAAACACCGCTAAAGAACGTGACCTTTAG
1 CGCTAAAGAACCTGACATTTAGCGGCGCTTTTCATACAAACGCCGCTAAAGAACGTGACCTTTAG
24263167 CGGCGCTTTTCACACAAATGT
66 CGGCGCTTTTCACACAAA-GT
* * * * *
24263188 CGCTAAAGAACATGACATTTAGCGGCGCTTTTTACACAAACGTCGCTAAAGAATGTGACCTTTAG
1 CGCTAAAGAACCTGACATTTAGCGGCGCTTTTCATACAAACGCCGCTAAAGAACGTGACCTTTAG
*
24263253 CGGCGCTTTTCACAC--A-C
66 CGGCGCTTTTCACACAAAGT
* * * *
24263270 CGCTAAAGAACCTGACATTTAGTGGCGCTTTTC-TAAAAAACGCCGCTATAGAACGTGACCTTTG
1 CGCTAAAGAACCTGACATTTAGCGGCGCTTTTCAT-ACAAACGCCGCTAAAGAACGTGACCTTTA
* *
24263334 GTGGCGCTTTTCATACAAACGT
65 GCGGCGCTTTTCACACAAA-GT
24263356 CGCTAAAGAACCTGACATTTAG
1 CGCTAAAGAACCTGACATTTAG
24263378 AAAAGTGCCG
Statistics
Matches: 163, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
82 68 0.42
84 2 0.01
86 93 0.57
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (85 bp):
CGCTAAAGAACCTGACATTTAGCGGCGCTTTTCATACAAACGCCGCTAAAGAACGTGACCTTTAG
CGGCGCTTTTCACACAAAGT
Found at i:24266403 original size:26 final size:26
Alignment explanation
Indices: 24266367--24266476 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
24266357 TGATACAAAT
24266367 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
24266393 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
24266419 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
24266445 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
24266471 TGATAA
1 TGATAA
24266477 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:24272385 original size:9 final size:9
Alignment explanation
Indices: 24272367--24272513 Score: 108
Period size: 9 Copynumber: 16.7 Consensus size: 9
24272357 GTATTACGTT
*
24272367 AGTTAAGTA
1 AGTTATGTA
*
24272376 AGTTTTGTA
1 AGTTATGTA
24272385 AGTTATGTA
1 AGTTATGTA
*
24272394 GGTTTATGTA
1 AG-TTATGTA
*
24272404 AGGTATGTA
1 AGTTATGTA
24272413 AGTTATGATA
1 AGTTATG-TA
* * *
24272423 TGATATAT-
1 AGTTATGTA
*
24272431 ATTTATGT-
1 AGTTATGTA
24272439 -GTTATGTA
1 AGTTATGTA
24272447 AGTTATGTA
1 AGTTATGTA
24272456 AGTTATGATA
1 AGTTATG-TA
* * *
24272466 TGATATAT-
1 AGTTATGTA
*
24272474 ATTTATGT-
1 AGTTATGTA
24272482 A-TTATGTA
1 AGTTATGTA
*
24272490 AGTTTTGTA
1 AGTTATGTA
24272499 AGTTATGTA
1 AGTTATGTA
24272508 AGTTAT
1 AGTTAT
24272514 TACATAATTA
Statistics
Matches: 107, Mismatches: 24, Indels: 14
0.74 0.17 0.10
Matches are distributed among these distances:
7 12 0.11
8 10 0.09
9 65 0.61
10 20 0.19
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (9 bp):
AGTTATGTA
Found at i:24272454 original size:43 final size:43
Alignment explanation
Indices: 24272397--24272505 Score: 191
Period size: 43 Copynumber: 2.5 Consensus size: 43
24272387 TTATGTAGGT
* *
24272397 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTG
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
24272440 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
*
24272483 TTATGTAAGTTTTGTAAGTTATG
1 TTATGTAAGTTATGTAAGTTATG
24272506 TAAGTTATTA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
Found at i:24272686 original size:15 final size:15
Alignment explanation
Indices: 24272662--24272716 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
24272652 AAAAAATTAT
24272662 TTTAATTAAATAATA
1 TTTAATTAAATAATA
* *
24272677 TTTAAATAAATTAT-
1 TTTAATTAAATAATA
*
24272691 TTTAGTTAAATAATA
1 TTTAATTAAATAATA
*
24272706 TTTAAGTAAAT
1 TTTAATTAAAT
24272717 TAATCCAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
14 11 0.34
15 21 0.66
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (15 bp):
TTTAATTAAATAATA
Found at i:24272688 original size:29 final size:29
Alignment explanation
Indices: 24272655--24272718 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
24272645 ACATGGAAAA
24272655 AAATTATTTTAATTAAATAATATTTAAAT
1 AAATTATTTTAATTAAATAATATTTAAAT
* *
24272684 AAATTATTTTAGTTAAATAATATTTAAGT
1 AAATTATTTTAATTAAATAATATTTAAAT
24272713 AAATTA
1 AAATTA
24272719 ATCCAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (29 bp):
AAATTATTTTAATTAAATAATATTTAAAT
Found at i:24272851 original size:194 final size:195
Alignment explanation
Indices: 24272519--24273011 Score: 805
Period size: 194 Copynumber: 2.5 Consensus size: 195
24272509 GTTATTACAT
*
24272519 AATTAATCCAAATTATGTAATTTAAAAAATTTTGTATAAAAAGTTGAAAACCGTATAAGATGAAA
1 AATTAATCCAAATTATGTAATTTAAAAAATTGTGTATAAAAAGTTGAAAACCGTATAAGATGAAA
* *
24272584 TGTCAACTTTGTTCTATGAAAAAGAAATAATAAAAATAAAATTTGACCATGTGGAAAAATCACAT
66 TGTCAACTTTGTTCCATGAAAAAGAAATAATAAAAATAAAATTTGACAATGTGGAAAAATCACAT
* * *
24272649 GGAAAAAAATTATTTTAATTAAATAATATTTAAATAAATTATTTTAGTTAAATAATATTTAAGTA
131 GGAAAAAAATTATTTTAATTAAATAATATTTAAATAAACTATTTTAATTAAAAAATATTTAAGTA
*
24272714 AATTAATCCAAATTATGTAATTTAAAAAATTGCGTA-AAAAAGTTGAAAACCGTATAAGATGAAA
1 AATTAATCCAAATTATGTAATTTAAAAAATTGTGTATAAAAAGTTGAAAACCGTATAAGATGAAA
*
24272778 TGTCAACTCTGTTCCATGAAAAAGAAATAATAAAAATAAAATTTGACAATGTGG-AAAATCACAT
66 TGTCAACTTTGTTCCATGAAAAAGAAATAATAAAAATAAAATTTGACAATGTGGAAAAATCACAT
*
24272842 GGAAAAAAAATTATTTTAATTAAATAATATTTAAATAAACTATTTTAATTAAAAAATATTTAATT
131 GG-AAAAAAATTATTTTAATTAAATAATATTTAAATAAACTATTTTAATTAAAAAATATTTAAGT
24272907 A
195 A
* *
24272908 CATTAATCCAAATTATATAATTTAAAAAATTGTGTATAAAAAGTTAGAAAACCGTATAAGATGAA
1 AATTAATCCAAATTATGTAATTTAAAAAATTGTGTATAAAAAGTT-GAAAACCGTATAAGATGAA
** *
24272973 ATGTCAA-TATTGTTCCATTTAAAA-AAATATTAAAAATAA
65 ATGTCAACT-TTGTTCCATGAAAAAGAAATAATAAAAATAA
24273012 GATTGAACCT
Statistics
Matches: 278, Mismatches: 16, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
193 12 0.04
194 171 0.62
195 57 0.21
196 38 0.14
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (195 bp):
AATTAATCCAAATTATGTAATTTAAAAAATTGTGTATAAAAAGTTGAAAACCGTATAAGATGAAA
TGTCAACTTTGTTCCATGAAAAAGAAATAATAAAAATAAAATTTGACAATGTGGAAAAATCACAT
GGAAAAAAATTATTTTAATTAAATAATATTTAAATAAACTATTTTAATTAAAAAATATTTAAGTA
Found at i:24272866 original size:14 final size:14
Alignment explanation
Indices: 24272849--24272894 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
24272839 CATGGAAAAA
24272849 AAATTATTTTAATT
1 AAATTATTTTAATT
* *
24272863 AAATAATATTTAAAT
1 AAATTAT-TTTAATT
*
24272878 AAACTATTTTAATT
1 AAATTATTTTAATT
24272892 AAA
1 AAA
24272895 AAATATTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (14 bp):
AAATTATTTTAATT
Found at i:24272880 original size:15 final size:15
Alignment explanation
Indices: 24272856--24272907 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
24272846 AAAAAATTAT
24272856 TTTAATTAAATAATA
1 TTTAATTAAATAATA
*
24272871 TTTAAATAAACT-AT-
1 TTTAATTAAA-TAATA
*
24272885 TTTAATTAAAAAATA
1 TTTAATTAAATAATA
24272900 TTTAATTA
1 TTTAATTA
24272908 CATTAATCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 11 0.35
15 19 0.61
16 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
TTTAATTAAATAATA
Found at i:24273348 original size:24 final size:24
Alignment explanation
Indices: 24273279--24273337 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
24273269 TAACTTAAAT
24273279 GATAAAACGGATGATAATATTTGG
1 GATAAAACGGATGATAATATTTGG
24273303 GATAAAACGGATGATAATATTTGG
1 GATAAAACGGATGATAATATTTGG
24273327 GATAAAACGGA
1 GATAAAACGGA
24273338 CAAGAATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.44, C:0.05, G:0.25, T:0.25
Consensus pattern (24 bp):
GATAAAACGGATGATAATATTTGG
Found at i:24274493 original size:22 final size:22
Alignment explanation
Indices: 24274467--24274509 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
24274457 TTAGAATAAA
24274467 TTTACAAGTTTAAGGTTAATTT
1 TTTACAAGTTTAAGGTTAATTT
*
24274489 TTTACAAGTTTAGGGTTAATT
1 TTTACAAGTTTAAGGTTAATT
24274510 ATACTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (22 bp):
TTTACAAGTTTAAGGTTAATTT
Found at i:24275748 original size:3 final size:3
Alignment explanation
Indices: 24275742--24275778 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
24275732 TTCTCTTTTA
24275742 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
24275779 TACTAAAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:24276181 original size:21 final size:21
Alignment explanation
Indices: 24276123--24276200 Score: 77
Period size: 21 Copynumber: 3.6 Consensus size: 21
24276113 TGTATTTAAC
* *
24276123 GGTTTAAGGGTTTATTGTCTAT
1 GGTTT-AGGGTTTATGGTTTAT
* *
24276145 AGTTAAGGGTTTTATGGTTTA-
1 GGTTTAGGG-TTTATGGTTTAT
24276166 GGATTTAGGGTTTATGGTTTAT
1 GG-TTTAGGGTTTATGGTTTAT
*
24276188 GGTTTATGGTTTA
1 GGTTTAGGGTTTA
24276201 AAGTTTAAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
21 26 0.57
22 20 0.43
ACGTcount: A:0.19, C:0.01, G:0.29, T:0.50
Consensus pattern (21 bp):
GGTTTAGGGTTTATGGTTTAT
Found at i:24276184 original size:7 final size:7
Alignment explanation
Indices: 24276155--24276200 Score: 67
Period size: 7 Copynumber: 6.6 Consensus size: 7
24276145 AGTTAAGGGT
24276155 TTTATGG
1 TTTATGG
24276162 TTTA-GG
1 TTTATGG
*
24276168 ATTTAGGG
1 -TTTATGG
24276176 TTTATGG
1 TTTATGG
24276183 TTTATGG
1 TTTATGG
24276190 TTTATGG
1 TTTATGG
24276197 TTTA
1 TTTA
24276201 AAGTTTAAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
6 2 0.06
7 32 0.89
8 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.54
Consensus pattern (7 bp):
TTTATGG
Found at i:24276288 original size:59 final size:58
Alignment explanation
Indices: 24276211--24276445 Score: 168
Period size: 59 Copynumber: 4.1 Consensus size: 58
24276201 AAGTTTAAAG
*
24276211 TTTGCATTTAAAGGTTTAAGGGTTTAGTGATTCAGGTTTAGAGTTTTAGGATTTAGGAT
1 TTTGTATTTAAAGGTTTAAGGGTTTAGTGATTCAGGTTTAGAGTTTTAGG-TTTAGGAT
*
24276270 TTTGTATTTAAAGGTTTAAGGGTTTAGTG--TCTATAGTTTAG-GATTTTATGGTTTAGGAT
1 TTTGTATTTAAAGGTTTAAGGGTTTAGTGATTC-A-GGTTTAGAG-TTTTA-GGTTTAGGAT
* ** * * * *
24276329 TTAGGGTTT--AGTGTTT-AGGGTTTAAG-GTTTACAGTTTTAGCA--TTTAGGATTTTGTATT
1 TTTGTATTTAAAG-GTTTAAGGGTTT-AGTGATT-CAGGTTTAG-AGTTTTAGG-TTTAGGA-T
* * * * *
24276387 TTTGTATTTAAGGGCTTAAGGGTTT-GTGATTCGGGTTTAGGGTTTAAGGTTTA-GAT
1 TTTGTATTTAAAGGTTTAAGGGTTTAGTGATTCAGGTTTAGAGTTTTAGGTTTAGGAT
24276443 TTT
1 TTT
24276446 TAGGATTTAG
Statistics
Matches: 136, Mismatches: 21, Indels: 41
0.69 0.11 0.21
Matches are distributed among these distances:
56 6 0.04
57 22 0.16
58 31 0.23
59 66 0.49
60 11 0.08
ACGTcount: A:0.22, C:0.03, G:0.27, T:0.48
Consensus pattern (58 bp):
TTTGTATTTAAAGGTTTAAGGGTTTAGTGATTCAGGTTTAGAGTTTTAGGTTTAGGAT
Found at i:24276358 original size:14 final size:13
Alignment explanation
Indices: 24276155--24276359 Score: 63
Period size: 14 Copynumber: 14.3 Consensus size: 13
24276145 AGTTAAGGGT
*
24276155 TTTATGGTTTAGG
1 TTTAGGGTTTAGG
24276168 ATTTAGGGTTTATGG
1 -TTTAGGGTTTA-GG
*
24276183 TTTATGGTTTATGG
1 TTTAGGGTTTA-GG
** *
24276197 TTTAAAGTTTAAAG
1 TTTAGGGTTT-AGG
**
24276211 TTT-GCATTTAAAGG
1 TTTAGGGTTT--AGG
24276225 TTTAAGGGTTTAGTG
1 TTT-AGGGTTTAG-G
*
24276240 ATTCA-GGTTTAGAG
1 -TTTAGGGTTTAG-G
*
24276254 TTTTAGGATTTAGG
1 -TTTAGGGTTTAGG
* **
24276268 ATTTTGTATTTAAAGG
1 -TTTAGGGTTT--AGG
24276284 TTTAAGGGTTTAGTG
1 TTT-AGGGTTTAG-G
* **
24276299 TCTATAGTTTAGG
1 TTTAGGGTTTAGG
*
24276312 ATTTTATGGTTTAGG
1 --TTTAGGGTTTAGG
24276327 ATTTAGGGTTTAGTG
1 -TTTAGGGTTTAG-G
24276342 TTTAGGGTTTAAGG
1 TTTAGGGTTT-AGG
24276356 TTTA
1 TTTA
24276360 CAGTTTTAGC
Statistics
Matches: 146, Mismatches: 29, Indels: 32
0.71 0.14 0.15
Matches are distributed among these distances:
13 4 0.03
14 98 0.67
15 31 0.21
16 13 0.09
ACGTcount: A:0.23, C:0.01, G:0.27, T:0.48
Consensus pattern (13 bp):
TTTAGGGTTTAGG
Found at i:24276765 original size:40 final size:40
Alignment explanation
Indices: 24276696--24277120 Score: 225
Period size: 40 Copynumber: 10.8 Consensus size: 40
24276686 TTTTGCGACG
* * * * *
24276696 TCAACAAGCGCCGCTAATGGTCAACCTATAGTGTCGTTTT
1 TCAAAAAGCGCCGCTAATGCTCGATCTATAGGGTCGTTTT
* *
24276736 TTAAAAAGCGCCGCTAATACTCGATCTATAGCGG-CGTTTT
1 TCAAAAAGCGCCGCTAATGCTCGATCTATAG-GGTCGTTTT
* * ** *
24276776 TCAAAAAGCGCCACTAATGCTTGATCTATAATAG-CATTTT
1 TCAAAAAGCGCCGCTAATGCTCGATCTAT-AGGGTCGTTTT
* *
24276816 TCAAAAAGCGCCGCTAATGGTCGACCTATAGCGGT-GTTTT
1 TCAAAAAGCGCCGCTAATGCTCGATCTATAG-GGTCGTTTT
* * **
24276856 TTAAAAAGTGCAACTAATGCTCGATCTATAGCGGT-GTTTT
1 TCAAAAAGCGCCGCTAATGCTCGATCTATAG-GGTCGTTTT
* * ****
24276896 TCAAAAAGCGCCGCTAATGC-C-A-CTA-AAGCTC-AACA
1 TCAAAAAGCGCCGCTAATGCTCGATCTATAGGGTCGTTTT
* ** ** ** * * *
24276931 T-AAAATGACGGTG-TTGTGCTTAATTTTTTTGCGG-CGTTTT
1 TCAAAAAG-CGCCGCTAATGCTCGA-TCTATAG-GGTCGTTTT
* * * *
24276971 TTAAAAAGCACCGCTAATGCTCGACCTATAGTGG-CATTTT
1 TCAAAAAGCGCCGCTAATGCTCGATCTATAG-GGTCGTTTT
* * * *
24277011 TCAAAAAGCGTCGCTAATGTTCAATCTATAACGG-CGTTTT
1 TCAAAAAGCGCCGCTAATGCTCGATCTAT-AGGGTCGTTTT
** *
24277051 TTGAAAAGCG-CGCTAATGCTCGATCTCTAGTGGT-GTTTT
1 TCAAAAAGCGCCGCTAATGCTCGATCTATAG-GGTCGTTTT
* *
24277090 TCAAAAAGCACCACTAATGCTCGATCTATAG
1 TCAAAAAGCGCCGCTAATGCTCGATCTATAG
24277121 CATCAATTTT
Statistics
Matches: 281, Mismatches: 85, Indels: 38
0.70 0.21 0.09
Matches are distributed among these distances:
34 9 0.03
35 6 0.02
36 2 0.01
37 3 0.01
38 3 0.01
39 32 0.11
40 212 0.75
41 14 0.05
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (40 bp):
TCAAAAAGCGCCGCTAATGCTCGATCTATAGGGTCGTTTT
Found at i:24276835 original size:120 final size:120
Alignment explanation
Indices: 24276696--24276915 Score: 343
Period size: 120 Copynumber: 1.8 Consensus size: 120
24276686 TTTTGCGACG
* * **
24276696 TCAACAAGCGCCGCTAATGGTCAACCTATAG-TGTCGTTTTTTAAAAAGCGCCGCTAATACTCGA
1 TCAAAAAGCGCCGCTAATGGTCAACCTATAGCGGT-GTTTTTTAAAAAGCGCAACTAATACTCGA
24276760 TCTATAGCGGCGTTTTTCAAAAAGCGCCACTAATGCTTGATCTATAATAGCATTTT
65 TCTATAGCGGCGTTTTTCAAAAAGCGCCACTAATGCTTGATCTATAATAGCATTTT
* * *
24276816 TCAAAAAGCGCCGCTAATGGTCGACCTATAGCGGTGTTTTTTAAAAAGTGCAACTAATGCTCGAT
1 TCAAAAAGCGCCGCTAATGGTCAACCTATAGCGGTGTTTTTTAAAAAGCGCAACTAATACTCGAT
* *
24276881 CTATAGCGGTGTTTTTCAAAAAGCGCCGCTAATGC
66 CTATAGCGGCGTTTTTCAAAAAGCGCCACTAATGC
24276916 CACTAAAGCT
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
120 88 0.98
121 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (120 bp):
TCAAAAAGCGCCGCTAATGGTCAACCTATAGCGGTGTTTTTTAAAAAGCGCAACTAATACTCGAT
CTATAGCGGCGTTTTTCAAAAAGCGCCACTAATGCTTGATCTATAATAGCATTTT
Found at i:24277107 original size:79 final size:80
Alignment explanation
Indices: 24276962--24277119 Score: 210
Period size: 79 Copynumber: 2.0 Consensus size: 80
24276952 AATTTTTTTG
** *
24276962 CGGCGTTTTTTAAAAAGCACCGCTAATGCTCGACCTATAGTGGCATTTTTCAAAAAGCGTCGCTA
1 CGGCGTTTTTTAAAAAGCACCGCTAATGCTCGACCTATAGTGGCATTTTTCAAAAAGCACCACTA
*
24277027 ATGTTCAATCTATAA
66 ATGCTCAATCTATAA
* * * * **
24277042 CGGCGTTTTTTGAAAAGC-GCGCTAATGCTCGATCTCTAGTGGTGTTTTTCAAAAAGCACCACTA
1 CGGCGTTTTTTAAAAAGCACCGCTAATGCTCGACCTATAGTGGCATTTTTCAAAAAGCACCACTA
*
24277106 ATGCTCGATCTATA
66 ATGCTCAATCTATA
24277120 GCATCAATTT
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
79 50 0.75
80 17 0.25
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (80 bp):
CGGCGTTTTTTAAAAAGCACCGCTAATGCTCGACCTATAGTGGCATTTTTCAAAAAGCACCACTA
ATGCTCAATCTATAA
Found at i:24281536 original size:39 final size:39
Alignment explanation
Indices: 24281482--24281625 Score: 243
Period size: 39 Copynumber: 3.7 Consensus size: 39
24281472 GAATGTTCGA
24281482 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
24281521 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
24281560 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
24281599 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
24281626 CTTTGTGCGG
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:24281572 original size:78 final size:79
Alignment explanation
Indices: 24281483--24281665 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
24281473 AATGTTCGAG
24281483 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
24281547 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
24281561 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
24281626 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
24281640 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
24281666 GTTTGAACGA
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:24284813 original size:556 final size:554
Alignment explanation
Indices: 24283067--24286033 Score: 3976
Period size: 553 Copynumber: 5.4 Consensus size: 554
24283057 GGGTGTTACA
* * * *
24283067 CTTTGATTTTAATATTTTTTTTCCTTTCCTCCATTGCTGTTGTCACCCACACCTCCCATTTTACC
1 CTTTGATTTTAAT-GTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCATTTTACC
*
24283132 ATCTCTTTCTTCTTCTTTTTGAATCAAGATTGTGCACCATCCCCTTTAATCTATTGCTTCCATTT
65 ATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCCCCTTTAATCTATTGCTTCCATTT
* *
24283197 GTCCTCATCTAAATCAGCACCAAATCTGAAATCTTAAACACCAAGATCGATCCTAAACATTGCCA
130 GTCCTCATCTAAATCAGCACCAAATCTGAAATCTTGAACTCCAAGATCGATCCTAAACATTGCCA
* * *
24283262 AGAAAGTGGCATTATCGTTTCTCTGAACTAGCTTTGGTAAGATCTCTTCTTTCTTCAATTTTTTT
195 AGAAAGTGGCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAA---TTTT
* *
24283327 TTTACTAATCTTGCCAATTAAAAACCTAAATTTCAA-ATTTTGGAATTTGGGAGAATTTTAATGA
257 TTTATTAATCTTGCCAATTAAAAACCTAAATTTCAAGATTTT-GAATTTGGGAGAATTTTGATGA
* *
24283391 TTTTAAATATATTTTTTCAGTTTTTTAATGGGTCTTTAAATCGTCTTTAAATCT-GTCCCAAGTT
321 TTTTAAATATATTTTTTCAATTTTTTAATGGGTCTTTAAATCGTATTTAAAT-TAGTCCCAAGTT
*
24283455 CAAATCCCTTCT-CTAGCAAATAATTT-ATTTTTTTGACAAAAACCCCCTTGTTTTAATGTCTGT
385 CAAATCCCTTCTCCT-GCAAATAATTTAATTTTTTTGACAAAAA-CCCCTTGTTTTAATGTGTGT
* * * *
24283518 GTTGTCCAAGCCTAGAAAACCTAGGTATAAGTACTATTTTTTTACAAATAATCAGCCTTTAATCC
448 GTCGTCCAAGCCTAGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCC
* ** * * *
24283583 TCCTCCTCATTGCTCTAGACAGTCCTCTCCTCCTTTTATTCT
513 TCCTCCTCATTGCCCTACTCATTCCTCTCCTCCTCTCATTCT
* * **
24283625 CTTTGATTTTAATTTTTTTTTCCTTTCCTCCATTGTTGTTATCGCCTACACCTCCTTTTTTACCA
1 CTTTGATTTTAATGTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCATTTTACCA
* * * * *
24283690 TCTCTTTCTTCTTC-TTTTGTATCAAGATTGTGCACCATCTCCTATAACCTATTGCTTCCAGTTA
66 TCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCCCCTTTAATCTATTGCTTCCATTTG
* * * *
24283754 TCCTCA-CATAAATCAGCACCAAATCTAAAATCTTGAACAT-CAACATTGATCCTGAACATTGCC
131 TCCTCATC-TAAATCAGCACCAAATCTGAAATCTTGAAC-TCCAAGATCGATCCTAAACATTGCC
* * * * * * *
24283817 AAGAAAGTGCCATAATCGTTTCTTTCAACTAGCTTCGGTGATAGCTCTTATTTCTTCAATTTTTT
194 AAGAAAGTGGCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAATTTTTT
* * *
24283882 GATTAATCTTGCCAATTAAAAACCTAAATTTCTAGATTTGGAATTTGGGAGAATTTTGATGATTT
259 TATTAATCTTGCCAATTAAAAACCTAAATTTCAAGATTTTGAATTTGGGAGAATTTTGATGATTT
* * * *
24283947 TAAATATATTTTTTTAATTTTTTAATGGGTCTTTAAAGCGTACTTAAATTAGTCCCAGGTTCAAA
324 TAAATATATTTTTTCAATTTTTTAATGGGTCTTTAAATCGTATTTAAATTAGTCCCAAGTTCAAA
* * *
24284012 TCCCTTCTCTTGCAAATAATTT-ATTTTTTTGACAAAAACCTCTTGTTTTGATGTGTGTGTCGTC
389 TCCCTTCTCCTGCAAATAATTTAATTTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTC
* * * *
24284076 CAAGCCTACTAAACCTAGGCATAAGTATTATTTTTTCACAAATAATCAGACTTTAATCCTTCTCC
454 CAAGCCTAGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTCCTCC
* * * *
24284141 TCATTTCCCAAGTCATTCCTCTCTTCCTCTCATTCT
519 TCATTGCCCTACTCATTCCTCTCCTCCTCTCATTCT
* *
24284177 CTTTGATTTTAATGTTTTTTTTCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCCTTTTACCA
1 CTTTGATTTTAATGTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCATTTTACCA
* * * * * * * * *
24284242 TCTCTTTCTTTTTCTTTTTGTACCAAGATTGTTCACCATCTCATTTAATCTATTTCTTTCGTTTA
66 TCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCCCCTTTAATCTATTGCTTCCATTTG
* * * * * * *
24284307 TCCTTATCTAAATCAACACCAAATCTAAAATATTGAACTCGAAGATCAATCCTGAACATTGCCAA
131 TCCTCATCTAAATCAGCACCAAATCTGAAATCTTGAACTCCAAGATCGATCCTAAACATTGCCAA
* *
24284372 GAAAGTGACATTATCGTTTCTCTCAACTAGCTTGGGTAAGAACTCTTCTTTCTTCAATTTTTTTA
196 GAAAGTGGCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAATTTTTTTA
* * * * *
24284437 TTAATGTTTCTAATTAAAAACCTAAATTTAAAGATTTTGAATTTGGGAGAATTTTAATGATTTTA
261 TTAATCTTGCCAATTAAAAACCTAAATTTCAAGATTTTGAATTTGGGAGAATTTTGATGATTTTA
* * *
24284502 AATATATATTTTTCAAATTTTTAATGGTTCTTTAAATCATATTTAAATTAGTCCCAAGTTCAAAT
326 AATATAT-TTTTTCAATTTTTTAATGGGTCTTTAAATCGTATTTAAATTAGTCCCAAGTTCAAAT
* *
24284567 CCCTTCTCCTGCAAACAATTTAATTTTTTTTGACAAAAACCCCTTGTTTTATTGTGTGTGTCGTC
390 CCCTTCTCCTGCAAATAATTTAA-TTTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTC
* ** * *
24284632 CAATCCTAGTAAACCTAGCCATAAGTATTATTTTCTCACAAATAATCAGCCTTTAATCCACCTCC
454 CAAGCCTAGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTCCTCC
* *
24284697 TTATTGCCCTACTCATTCATCTCCTCCTCTCATTCT
519 TCATTGCCCTACTCATTCCTCTCCTCCTCTCATTCT
* *
24284733 CTTTGATTTTAATGATTTTTTCCTTTCCTCCATTGTTGTTGTTGCCTACACCTCCCATTTTACCA
1 CTTTGATTTTAATGTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCATTTTACCA
* *
24284798 TCTCTTTCTTTTTCTTTTTGTATCAAGATTGTGAACCATCCCCTTTAATCTATTGCTTCCATTTG
66 TCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCCCCTTTAATCTATTGCTTCCATTTG
* * * *
24284863 TCCTCAT-TCAAATCAGCACCAAATCTGAAATCTTGAACTCCAAAATCGACCCTGAACATTGCTA
131 TCCTCATCT-AAATCAGCACCAAATCTGAAATCTTGAACTCCAAGATCGATCCTAAACATTGCCA
*
24284927 AGATAGTGGCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTC-ATTTTTTT
195 AGAAAGTGGCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAATTTTTTT
* * * * *
24284991 ATTCATCTTGCCAATTAAAAACCTAAATTTCTAGATTTGGAATTTAGGAGAACTTTGATGATTTT
260 ATTAATCTTGCCAATTAAAAACCTAAATTTCAAGATTTTGAATTTGGGAGAATTTTGATGATTTT
* * *
24285056 AAATATATTTTCTC-AGTTTTTAATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAAT
325 AAATATATTTTTTCAATTTTTTAATGGGTCTTTAAATCGTATTTAAATTAGTCCCAAGTTCAAAT
* * * *
24285120 CTCTTCTCCTGCAAATAATTTAATTTTTTTTGTC-AAAACCCACTTGTTTTAATGTGTGCGTCAT
390 CCCTTCTCCTGCAAATAATTTAA-TTTTTTTGACAAAAACCC-CTTGTTTTAATGTGTGTGTCGT
* *
24285184 CCAAGCCTAGTAAACCTAGGTATAAGTATTATTTTATCACAAATAATCAGCCTTTAATCCACCTC
453 CCAAGCCTAGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTCCTC
* *
24285249 CTCATTTCCCTACTCATTCATCTCCTCCTCTCATTCT
518 CTCATTGCCCTACTCATTCCTCTCCTCCTCTCATTCT
* *
24285286 CTTTGATTTTAATGTTTTTTTCCTTTCCTCCATTGTTGTTGTCACCCACACCTCCCATTTTACCA
1 CTTTGATTTTAATGTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCATTTTACCA
*
24285351 TCTCATTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCCCCTTTAATCTATTGCTTCCATTTG
66 TCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCCCCTTTAATCTATTGCTTCCATTTG
* * * *
24285416 TCCTCATCTAAATCAGCACCAAATCTGAAATATTGACCTCCAAGGTCAATCCTAAACATTGCCAA
131 TCCTCATCTAAATCAGCACCAAATCTGAAATCTTGAACTCCAAGATCGATCCTAAACATTGCCAA
* * * *
24285481 GAAAGTGTCACTATCGTTTCT-TGGAACTAGCTTTGGTAAGAGCT-TTGCTTTCTTCAATTTTTT
196 GAAAGTGGCATTATCGTTTCTCT-CAACTAGCTTGGGTAAGAGCTCTT-CTTTCTTCAA--TTTT
* *
24285544 TTTACTAAACCTT-CCAATTAAAAACCTAAATTTCAA-ATTTTGTAATTTGGGAGAATTTTGATG
257 TTTA-TTAATCTTGCCAATTAAAAACCTAAATTTCAAGATTTTG-AATTTGGGAGAATTTTGATG
* * * * * * * * * * **
24285607 ATTTTCAATACATTTTTTTAGTTTTTTAATTGGTCTTCAAATCGAATGTAAATCAATCCTGAGTT
320 ATTTTAAATATATTTTTTCAATTTTTTAATGGGTCTTTAAATCGTATTTAAATTAGTCCCAAGTT
** * * *
24285672 CAAATCCCTTCTTTTGCAAACAATTTAA-ATTTTTGACAAAACCCCCTTGTTTTAATGTGTGTGT
385 CAAATCCCTTCTCCTGCAAATAATTTAATTTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGT
* ** ** * *
24285736 CGTCCAAGCTTAGTAAACCTAGGTGCAAGTGCTATTCTTTCACAAATAATCAGTCTTTAATCCTC
450 CGTCCAAGCCTAGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTC
* *
24285801 CTCCTCACTGCCCTACTCATTCCTCTCCTCCTCTCAATCT
515 CTCCTCATTGCCCTACTCATTCCTCTCCTCCTCTCATTCT
* * * * * * *
24285841 ATTTGATTTTAA--TTTTTTTCTTTTCCTCCATTGTTGTTCTGGCTTACACCACCCCTTTTACCA
1 CTTTGATTTTAATGTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCATTTTACCA
* * * * * **
24285904 TCTTTTTCTTCTTCTTGTTGCATCACGATTGTGCAACATATCCTTTAATCTATTGCTTCCATTT-
66 TCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCCCCTTTAATCTATTGCTTCCATTTG
* *
24285968 TCCCTCATCTACATCAGCACCAAATCTGAAATCTTGAACTCAAAGATCGATCCTAAACATTGCCA
131 T-CCTCATCTAAATCAGCACCAAATCTGAAATCTTGAACTCCAAGATCGATCCTAAACATTGCCA
24286033 A
195 A
24286034 TTAAAAACTT
Statistics
Matches: 2127, Mismatches: 258, Indels: 53
0.87 0.11 0.02
Matches are distributed among these distances:
552 194 0.09
553 941 0.44
554 82 0.04
555 206 0.10
556 566 0.27
557 125 0.06
558 13 0.01
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (554 bp):
CTTTGATTTTAATGTTTTTTTCCTTTCCTCCATTGTTGTTGTCGCCTACACCTCCCATTTTACCA
TCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCCCCTTTAATCTATTGCTTCCATTTG
TCCTCATCTAAATCAGCACCAAATCTGAAATCTTGAACTCCAAGATCGATCCTAAACATTGCCAA
GAAAGTGGCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTTCTTCAATTTTTTTA
TTAATCTTGCCAATTAAAAACCTAAATTTCAAGATTTTGAATTTGGGAGAATTTTGATGATTTTA
AATATATTTTTTCAATTTTTTAATGGGTCTTTAAATCGTATTTAAATTAGTCCCAAGTTCAAATC
CCTTCTCCTGCAAATAATTTAATTTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTCCA
AGCCTAGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTCCTCCTC
ATTGCCCTACTCATTCCTCTCCTCCTCTCATTCT
Found at i:24288077 original size:558 final size:555
Alignment explanation
Indices: 24286027--24289252 Score: 4491
Period size: 554 Copynumber: 5.8 Consensus size: 555
24286017 ATCCTAAACA
* *
24286027 TTGCCAATTAAAAACTTAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATA
1 TTGCCAATTAAAAACCTAAATTTCTAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATA
* * * *
24286092 TTTTTTCAATTTTTTAAATGGGTCTTTAAATCGTATTTAAATTAGTCCCAAGTTGAAATTCCTTC
66 TTTTTTCAGTTTTTT-AATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTC
* *
24286157 TCTTGCAAATAATTTAATTTTTTGAC-AAAACCCCATTGTTATAATGTGCGTGTCGTCCAAGCCT
130 TCTTGCAAATAATTTAATTTTTTGACAAAAACCCC-TTGTTTTAATGTGTGTGTCGTCCAAGCCT
* *
24286221 AGTAAACCTAGGTATAAGTATTATTTCTTCACAAATAATCAGCCTTTAATCCTCCTCCTCATTTC
194 AGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTCCTCCTCATTGC
* * *
24286286 CCTATTCATTCCACTCCTCCCCTCATTCTCTTTGATTTTAATGTTTTTTTTCTTTGCCTCCATTG
259 CCTACTCATTCCTCTCCTCCTCTCATTCTCTTTGATTTTAATGTTTTTTTTCTTT-CCTCCATTG
** * *
24286351 TTGTTGTCATCTACACCTCCCATTTTACCATCTCTTTATTTTTCTTTTTGTATCAAGATTGTGCA
323 TTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCA
* * * * * *
24286416 CCATCTCCTTTAATCTATTGCTTCCATTTATCTTCATTTAAATCAGCACCTAATCTGAAATCCTG
388 CCATCTCCTTTAATCTATTGCTTCCATTTGTCCTCATCTAAATCAGCACCAAATCTAAAATCTTG
* * * ** *
24286481 CACCCCAAGATCGATCCTGAACATTGCCAAGAAAGT-ATATTTGTCGTTTCTCTCAACTAGC-TT
453 AACTCCAAGATCGATCCTAAACATTGCCAAGAAAGTGGCA-TTATCGTTTCTCTCAACTAGCTTT
* *
24286544 GGATTAGAGCTTTTCTTTCTTC-ATTTTTTTTTATTAATC
517 GG-TAAGAGCTCTTCTTTCTTCAATTTTTTTTTATTAATC
*
24286583 TTGCCAATTAAAAATCTAAATTTCTAGATTTGGAATTTGGGAGAATTTTGATGATTTT--A-AT-
1 TTGCCAATTAAAAACCTAAATTTCTAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATA
* *
24286644 TTTTTTCATTTTTTTAATGCGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCT
66 TTTTTTCAGTTTTTTAATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCT
* * *
24286709 -TTACAAATAATTTAATTTTTTGACAAAAGCCCATTGTTTTAATGTGTGTGTCGTCCAAGCCTAG
131 CTTGCAAATAATTTAATTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTCCAAGCCTAG
**
24286773 TAAACCTAGGTATAAGTATTA--TTTTC-C-TTTAAT---CC----AT-CT--T-CTCATTGCCC
196 TAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTCCTCCTCATTGCCC
* * * * * *
24286823 TACTTATTCATCTCCTCCTCTCATTCTATTTGATTTTAATGATTTTTTCCTTTCCTTCATTGTTG
261 TACTCATTCCTCTCCTCCTCTCATTCTCTTTGATTTTAATGTTTTTTTTCTTTCCTCCATTGTTG
*
24286888 TTGTTGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCA
326 TTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCA
* *
24286953 TCCCCTTTAATCTATTGCTAT-AATTTGTCCTCATCTAAATCAGCACCAAATCTAAAATCTTGAA
391 TCTCCTTTAATCTATTGCT-TCCATTTGTCCTCATCTAAATCAGCACCAAATCTAAAATCTTGAA
* * *
24287017 CTCCAAGATCAATCCTAAACATTGCCAAGAAAGTGGTATTATCGTTTCTCTCAACTAGCTTAGGT
455 CTCCAAGATCGATCCTAAACATTGCCAAGAAAGTGGCATTATCGTTTCTCTCAACTAGCTTTGGT
24287082 AAGAGCTCTTCTTTCTTC-A-TTTTTTTTATTAATC
520 AAGAGCTCTTCTTTCTTCAATTTTTTTTTATTAATC
* * * *
24287116 ATGCCAATTAAAAACCTAAATTTCTAGATTTGGAATTTTGGAGAATTTTTATTATTTTAAATATA
1 TTGCCAATTAAAAACCTAAATTTCTAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATA
* *
24287181 TTTTCTCAGTTTTTTAATGGCTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCT
66 TTTTTTCAGTTTTTTAATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCT
* *
24287246 CTTGCAAATAATTTAATTTTTTGACAAAAACCCCTTG-TTTAATGTGTGTGTCGTCCAAACCGAG
131 CTTGCAAATAATTTAATTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTCCAAGCCTAG
*
24287310 TAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTTCTCCTCATTGCCC
196 TAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTCCTCCTCATTGCCC
* * * * *
24287375 TAGTAATTCCACTCCTCCTCTCATTTTCTTTGATTTTAATTTTTTTTTTCTTTCCTCCATTGTTG
261 TACTCATTCCTCTCCTCCTCTCATTCTCTTTGATTTTAATGTTTTTTTTCTTTCCTCCATTGTTG
* *
24287440 TTGTCACCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGAATCAAGATTGTGCACCA
326 TTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCA
* *
24287505 TCCCCTTTAATCTATTGCTTCCATTTGTCCTCATCTAAATCAGCACCAAATCTAAAATCTTAAAC
391 TCTCCTTTAATCTATTGCTTCCATTTGTCCTCATCTAAATCAGCACCAAATCTAAAATCTTGAAC
*
24287570 TCCAAGATCGATCCTAAACATTGCCAAGAAAGTGGCATTATCGTTTCTCTGAACTAGCTTTGGTA
456 TCCAAGATCGATCCTAAACATTGCCAAGAAAGTGGCATTATCGTTTCTCTCAACTAGCTTTGGTA
* * * *
24287635 TGAGGATCTTCTGTCTTCAATTCTTTTTTTTACTAATC
521 AGA-GCTCTTCTTTCTTCAA-T-TTTTTTTTATTAATC
* *
24287673 TTTG-CAATTAAAAACCTAAATTTCAAAATTTGGAATTTGGGAGAATTTTGATGATTTTAAATAT
1 -TTGCCAATTAAAAACCTAAATTTCTAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATAT
* * * *
24287737 ATTTTTTCAGTTTTTTAATGGGTCTTGAAATCGTATGTAAATCAATCCCCAGTTCAAATCCCTTC
65 ATTTTTTCAGTTTTTTAATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTC
* * *
24287802 TCTTGCAAACAGTTTAATTTTTTGAC-AAAACCCTCTTGTTTTAATGTGTGTGTCATCCAAGCCT
130 TCTTGCAAATAATTTAATTTTTTGACAAAAACCC-CTTGTTTTAATGTGTGTGTCGTCCAAGCCT
* * * * * ** **
24287866 AGTAAATCAAGGTATAAATTTTATTTTTTTACAAATAATCAATCTTTAATCCTCCTCCTCATTAT
194 AGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTCCTCCTCATTGC
* * * *
24287931 CCTACTCATTCCTTTCCTCCTCTCAATCTATTTGATTTTAATGTTCTTTTTT-TTTCCTCCATTT
259 CCTACTCATTCCTCTCCTCCTCTCATTCTCTTTGATTTTAATGTT-TTTTTTCTTTCCTCCATTG
* * * * * *
24287995 TTGTTCTGGCCTACACCATTCC-TTTTACCATCTCTTTCTTCTTCTGTTTGTATCAATATTGTGG
323 TTGTTGTCGCCTACACC-TCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGC
*
24288059 ACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCTA-CACCAAATCTAAAATCT
387 ACCATCTCCTTTAATCTATTGCTTCCATTTGTCCTCATCTAAATC-AGCACCAAATCTAAAATCT
* * * * *
24288123 TGAACTCGAATATCGATCCTGAACATT-CCTAAGAAAGTGGCATTATCTTTTCTTTCAACTAG-T
451 TGAACTCCAAGATCGATCCTAAACATTGCC-AAGAAAGTGGCATTATCGTTTCTCTCAACTAGCT
* * *
24288186 TTGGGTAAGAGCTCTTATTTCTTCAATTTTTTTTTACTAATA
515 TT-GGTAAGAGCTCTTCTTTCTTCAATTTTTTTTTATTAATC
* * *
24288228 TTGCCATTTAAAAACCTAAATTTCTAGATTTGGAATTTGAGAGAATTTTGATTATTTTAAATATA
1 TTGCCAATTAAAAACCTAAATTTCTAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATA
* * *
24288293 -TTTTTCAG-TTTTTAATGGGTCTTTAAATCATATTTTAATCAGTCTCAAGTTCAAATCCCTTCT
66 TTTTTTCAGTTTTTTAATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCT
* **
24288356 CTTGCAAATAATTTAATTTTTTTGACAAAAACCCCTTGTTTTAATTTGTGTGTCGTCTGAGCCTA
131 CTTGCAAATAATTTAA-TTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTCCAAGCCTA
* * *
24288421 GTAAACCTAGGTATAAGTATTAATTTTTCACAAATAATCAACATTTAATCCTCCTCCTCATTGCC
195 GTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTCCTCCTCATTGCC
* * * * *
24288486 CTATTCATTCCTCTCCTCCTCCCATTCTCTTTGATTTCTAATGTTCTTTTCCTTTCATCCATTGT
260 CTACTCATTCCTCTCCTCCTCTCATTCTCTTTGATTT-TAATGTTTTTTTTCTTTCCTCCATTGT
* * * *
24288551 TGTTGTCGCGTACACCTCCCCTTTTACCATCTTTTTCTTCTT-TTTTTGTAGCAAGATTGTGCAC
324 TGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCAC
* * * * *
24288615 CATATCATTTAATCTATTGCTTCCATTTGTCCTCATCTAAATCAACACTAAATCTGAAATCTTGA
389 CATCTCCTTTAATCTATTGCTTCCATTTGTCCTCATCTAAATCAGCACCAAATCTAAAATCTTGA
* * * * *
24288680 ACTCAAAGATCAATCCTAAACATTTCCAAGAAAGTGCCATTATCGTTTCTCTCAACTAGCTTGGG
454 ACTCCAAGATCGATCCTAAACATTGCCAAGAAAGTGGCATTATCGTTTCTCTCAACTAGCTTTGG
24288745 TAAGAGCTCTTCTTTCTTCAA--TTTTTTTATTAATC
519 TAAGAGCTCTTCTTTCTTCAATTTTTTTTTATTAATC
* * * *
24288780 TTGCCCAGTAAAAACTTAAATTTCCAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATA
1 TTGCCAATTAAAAACCTAAATTTCTAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATA
* *
24288845 TTTTTTCAATTTTTTAAATGGGTCTTTAAATCATATTTAAATCAGTCCCAAGTTCAAATCCCTTC
66 TTTTTTCAGTTTTTT-AATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTC
*
24288910 TCTTGCAAATAATTTAATTTTTTGACAAAAACCCTTTGTTTTAATGTGTGTGTCGTCCAAGCCTA
130 TCTTGCAAATAATTTAATTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTCCAAGCCTA
24288975 GTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTCCTCCTCATTGCC
195 GTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTCCTCCTCATTGCC
* ** * *
24289040 CTAGC-CATTCCTCTCCTCCTCTCATTCTCTTTAATTTTCTTTTTTTTTTTTCCTTTCTTCCATT
260 CTA-CTCATTCCTCTCCTCCTCTCATTCTCTTTGATTTT-AATGTTTTTTTT-CTTTCCTCCATT
* * * * *
24289104 GTTGTTGTCGCGTGCACCTCCCCTTTTGCCATCTCTTTCGTCTTCTTTTTGTATCAAGATTGTGC
322 GTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGC
* * * *
24289169 ACCATCTCCGTTAATCTATTGCTTACATTTGTCCTCATCTAAATCAGCACCAAATTTGAAATCTT
387 ACCATCTCCTTTAATCTATTGCTTCCATTTGTCCTCATCTAAATCAGCACCAAATCTAAAATCTT
*
24289234 GAATTCCAAGATCGATCCT
452 GAACTCCAAGATCGATCCT
24289253 GAATGTAACA
Statistics
Matches: 2368, Mismatches: 248, Indels: 108
0.87 0.09 0.04
Matches are distributed among these distances:
533 68 0.03
534 193 0.08
535 61 0.03
536 3 0.00
537 107 0.05
538 35 0.01
539 7 0.00
540 1 0.00
541 4 0.00
543 2 0.00
544 2 0.00
546 4 0.00
547 1 0.00
548 6 0.00
549 2 0.00
550 73 0.03
551 54 0.02
552 335 0.14
553 85 0.04
554 441 0.19
555 247 0.10
556 156 0.07
557 174 0.07
558 297 0.13
559 10 0.00
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (555 bp):
TTGCCAATTAAAAACCTAAATTTCTAGATTTGGAATTTGGGAGAATTTTGATGATTTTAAATATA
TTTTTTCAGTTTTTTAATGGGTCTTTAAATCGTATTTAAATCAGTCCCAAGTTCAAATCCCTTCT
CTTGCAAATAATTTAATTTTTTGACAAAAACCCCTTGTTTTAATGTGTGTGTCGTCCAAGCCTAG
TAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAATCCTCCTCCTCATTGCCC
TACTCATTCCTCTCCTCCTCTCATTCTCTTTGATTTTAATGTTTTTTTTCTTTCCTCCATTGTTG
TTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCA
TCTCCTTTAATCTATTGCTTCCATTTGTCCTCATCTAAATCAGCACCAAATCTAAAATCTTGAAC
TCCAAGATCGATCCTAAACATTGCCAAGAAAGTGGCATTATCGTTTCTCTCAACTAGCTTTGGTA
AGAGCTCTTCTTTCTTCAATTTTTTTTTATTAATC
Found at i:24290787 original size:43 final size:43
Alignment explanation
Indices: 24290724--24290885 Score: 197
Period size: 43 Copynumber: 3.8 Consensus size: 43
24290714 AGCTTGTATA
* * *
24290724 ATGTC-ATGTCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGTCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * * *
24290766 ATGTCAATGTCCCAAACATGGTCTTACACGAAATCATATAACG
1 ATGTCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
24290809 ATG-CAATGTCCCAGACATGGTCTTACACGTAAT-AGCAATAT-G
1 ATGTCAATGTCCCAGACATGGTCTTACACGTAATCA-C-ATATCG
* *
24290851 ATGCCAATGTCCCAGACATGGTCTTACACATAATC
1 ATGTCAATGTCCCAGACATGGTCTTACACGTAATC
24290886 TCATCTCGTT
Statistics
Matches: 103, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
41 1 0.01
42 37 0.36
43 65 0.63
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGTCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:24292869 original size:17 final size:17
Alignment explanation
Indices: 24292847--24292885 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
24292837 AATCATATTT
24292847 AAATCAGTCCCAAGTTG
1 AAATCAGTCCCAAGTTG
24292864 AAATCAGTCCCAAGTTG
1 AAATCAGTCCCAAGTTG
24292881 AAATC
1 AAATC
24292886 CCTTCTCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (17 bp):
AAATCAGTCCCAAGTTG
Found at i:24293932 original size:553 final size:551
Alignment explanation
Indices: 24292104--24294532 Score: 3397
Period size: 553 Copynumber: 4.4 Consensus size: 551
24292094 AGCTGTTACA
* *
24292104 CTGAACATTGCCATGAAAGTGTCATTATCGTTTCTCTCAACTAGCTTTGGTAAGAGCTCTTCTTT
1 CTGAACATTGCCAAGAAAGTGTCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTT
* * * * *
24292169 CTTCAATTTTTTTACTAA-CTTGCCAATTAAAAAACTAAGTTTCCAAATTTGGAATTTGGGAGAA
66 CTTCAATTTTTTTATTAATCTTGCCAATTAAAAACCTAAATTTCCAGATTTTGAATTTGGGAGAA
* * * *
24292233 TTTTGAAGATTTTAAATATATATTTTTTAGTTTTTTAATGAGTCTTTAAATCGTATTTAAATCAG
131 TTTTTATGATTTTAAATATAT-TTTTTCACTTTTTTAATG-GTCTTTAAATCGTATTTAAATCAG
* * * * *
24292298 TCCCTAGTTCAAATCCTTTCTATTGCAAACAGTTTAATTTTTTGACAAAAACCCCTTGTTTTAAT
194 TCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGACAAAAA-CCCTTGTTTTAAT
* * *
24292363 GTGTGTGTCATCCAAGCCTAATAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCATT
258 GTGTGTGTCATCCAAGACTAGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTT
* * * * *
24292428 TAGTCCTTCTCCTCATTG-CCTAGTCATTCCTCTCCTCCTCTCATTCTCTTTAATTTTAATGTTT
323 TAATCCTCCTCCTCATTGCCCTACTCATTCCTCTCCTCCTCTCATTCTATTTGATTTTAATG--T
* * * * *
24292492 TCTTTTTCTTTTTCTCTATCGTCGTTGTCGCCTACACCTTCCATTTTACCATCTCTTTCTTCTTC
386 T-TTTTTCCTTTCCTCTATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTC
* * * **
24292557 TTTTTGTATCAAGATTGTGCTCCATCTCTTTTAATCTATTGATTCCATTTATCCTCATCTAAGCC
450 TTTTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATC
* *
24292622 AGCACAAAATCTGAAATCTTAAACTCCAAGATCGATC
515 AGCACCAAATCTGAAATCTTGAACTCCAAGATCGATC
* * * *
24292659 CTAAACATTTCCAAGAAAGTGTCATTATCATTTCTCTCAACTAGCTTGGGTAAAAGCTCTTCTTT
1 CTGAACATTGCCAAGAAAGTGTCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTT
* * *
24292724 CTTCAATTTTTTTTATTAATCTTGCCAATTAAAAAACTAAATTTCCAGATTTGGAGTTTGGGAGA
66 CTTCAA-TTTTTTTATTAATCTTGCCAATTAAAAACCTAAATTTCCAGATTTTGAATTTGGGAGA
*
24292789 ATTTTTATGATTTTAAATATATTTTTTCAGTTTTTTAATGGGTTTTTAAATCATATTTAAATCAG
130 ATTTTTATGATTTTAAATATATTTTTTCACTTTTTTAAT-GG--------TC---TTTAAATC-G
* *
24292854 TCCCAAGTTGAAATCAGTCCCAAGTTGAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGACAA
182 T----A-TTTAAATCAGTCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGACAA
* * *
24292919 TAACCCCTTGTTTTAATGTGTGTTTCATCCAAAACTAGTAAACCTAGGTATAAGTATTATTTTTT
242 -AAACCCTTGTTTTAATGTGTGTGTCATCCAAGACTAGTAAACCTAGGTATAAGTATTATTTTTT
* * *
24292984 CACAAATAATCAGCCTTTAATCCTCCTCCTCTTTGCCCTACTCATTCCTCTCATCCTCTCTTTCT
306 CACAAATAATCAGCCTTTAATCCTCCTCCTCATTGCCCTACTCATTCCTCTCCTCCTCTCATTCT
*
24293049 ATTTGATTTTAATGTTTTTTTCCTTTCCTCTATTGTTGTTGTCGCCTACACCTCCCATTTTATCA
371 ATTTGATTTTAATGTTTTTTTCCTTTCCTCTATTGTTGTTGTCGCCTACACCTCCCATTTTACCA
* * *
24293114 TCTCTTTCTTCTTATTTTTGCATCAAGATTGTGCACCGTCTCCTTTAATCTATTGCTTCCATTTA
436 TCTCTTTCTTCTTCTTTTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTTA
* * * *
24293179 TCCTCATGTAAATCAGCACCAAATCTAAAATCTTGAACTGCAAGATTGATC
501 TCCTCATCTAAATCAGCACCAAATCTGAAATCTTGAACTCCAAGATCGATC
* *
24293230 CTGAACATTGCCAAGAAAGTGGCATTATCGTTTCTCTCAACTAGCTTGGGTAGGAGCTCTTCTTT
1 CTGAACATTGCCAAGAAAGTGTCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTT
* *
24293295 CTTCTATTTTTTTTATTAATCTTACCAATTAAAAACCTAAATTTCCAGATTTTGAATTTGGGAGA
66 CTTC-AATTTTTTTATTAATCTTGCCAATTAAAAACCTAAATTTCCAGATTTTGAATTTGGGAGA
*
24293360 ATTTTTATGATTTTAAATATATTTTTTCACTTTTTTAATAGGTCTTTAAATCATATTTAAATCAG
130 ATTTTTATGATTTTAAATATATTTTTTCACTTTTTTAAT-GGTCTTTAAATCGTATTTAAATCAG
*
24293425 TCCCAAGTTGAAAT-CCTTCTCTTGCAAATAATTTAATTTTTTGACAAAAACCCTTGTTTTAATG
194 TCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGACAAAAACCCTTGTTTTAATG
*
24293489 TGTGTGTCGTCCAAGACTAGTAAACCTAGGTATAAGTATTATTTTTTTCACAAATAATCAGCCTT
259 TGTGTGTCATCCAAGACTAGTAAACCTAGGTATAAGTATTA-TTTTTTCACAAATAATCAGCCTT
** * * *
24293554 TAATTTTCCTCCTCATTGCCCTACTCATTCCTCTCCTCCTCTCATTCTGTTTTAGTTTAATGTTT
323 TAATCCTCCTCCTCATTGCCCTACTCATTCCTCTCCTCCTCTCATTCTATTTGATTTTAATGTTT
24293619 TTTTCCTTTCCTCTATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTT
388 TTTTCCTTTCCTCTATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTT
* * *
24293684 TTGTATCAAGATTGTGCACCATCTCCTTTAATTTATTGCTTCTATTTATCCTCATCTAAATCAAC
453 TTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCAGC
* *
24293749 ACCAAATCTGAAATCTTGAACTCCAATATTGATC
518 ACCAAATCTGAAATCTTGAACTCCAAGATCGATC
* *
24293783 CTGAATATTGCCAAGAAAGTGTCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTGTTT
1 CTGAACATTGCCAAGAAAGTGTCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTT
*
24293848 CTTCAAATTTTTTTATTAATCTTGCCAATTAAAAACCTAAATTTCCATATTTTGAATTTGGGAGA
66 CTTC-AATTTTTTTATTAATCTTGCCAATTAAAAACCTAAATTTCCAGATTTTGAATTTGGGAGA
* * *
24293913 ATTTTGATGATTTTAAATATATTTTTTCA-GTTTTTAATGGATCTTTAAATCGTA-TTAAATCAC
130 ATTTTTATGATTTTAAATATATTTTTTCACTTTTTTAATGG-TCTTTAAATCGTATTTAAATCAG
* *
24293976 TCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGACAAAAGCCTATTGTTTTAAT
194 TCCCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGACAAAAACC-CTTGTTTTAAT
* * *
24294041 GTGTGTTTCATCCAAGCCTAGTAAACCTAGGTATAAGTATTA-TTTTTCACAAATAATCAGTCTT
258 GTGTGTGTCATCCAAGACTAGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTT
** * *
24294105 TAATCCTCCTCCTCATTTTCCTAGTCATTCCTCTCCTCCT-TATATTCTATTTGATTTTAAT-TT
323 TAATCCTCCTCCTCATTGCCCTACTCATTCCTCTCCTCCTCT-CATTCTATTTGATTTTAATGTT
* * * * * * *
24294168 TTTTTCCTTTCCTCCATGGTTATTGTCGCGTACACCTCCCCTTTTACCATATCCTTCTTCTTCTT
387 TTTTTCCTTTCCTCTATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTT
*
24294233 TTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTTATTCTCATCTAAATCAG
452 TTTGTATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCAG
* *
24294298 CACCAAATTTGAAGTCTTGAACTCCAAGATCGATC
517 CACCAAATCTGAAATCTTGAACTCCAAGATCGATC
* * * *
24294333 CTGAACATTGCCAAGAAAGTGTCATAATCGTTTCTTTCAACTAGCTTGGGTAAGGGCTCTTCATT
1 CTGAACATTGCCAAGAAAGTGTCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTT
* * * **
24294398 CTTCAATTTTTTGATTAATCTTGCCAATTACAAACCTAAAATTATAGA-TTTGTAA-TTGTGGAG
66 CTTCAATTTTTTTATTAATCTTGCCAATTAAAAACCTAAATTTCCAGATTTTG-AATTTG-GGAG
* *
24294461 AATTTTTATGATTATAAATAT-TTTTCTTCTAC-TTTTTAATGGGTCTTTAAATTGTATTTAAAT
129 AATTTTTATGATTTTAAATATATTTT-TTC-ACTTTTTTAAT-GGTCTTTAAATCGTATTTAAAT
* *
24294524 TAGTGCCAA
191 CAGTCCCAA
24294533 TTTTAGCCAC
Statistics
Matches: 1686, Mismatches: 153, Indels: 74
0.88 0.08 0.04
Matches are distributed among these distances:
548 11 0.01
549 66 0.04
550 237 0.14
551 108 0.06
552 111 0.07
553 465 0.28
554 23 0.01
555 66 0.04
556 28 0.02
557 63 0.04
559 1 0.00
560 8 0.00
563 2 0.00
564 2 0.00
567 8 0.00
568 2 0.00
571 302 0.18
572 4 0.00
573 139 0.08
574 40 0.02
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (551 bp):
CTGAACATTGCCAAGAAAGTGTCATTATCGTTTCTCTCAACTAGCTTGGGTAAGAGCTCTTCTTT
CTTCAATTTTTTTATTAATCTTGCCAATTAAAAACCTAAATTTCCAGATTTTGAATTTGGGAGAA
TTTTTATGATTTTAAATATATTTTTTCACTTTTTTAATGGTCTTTAAATCGTATTTAAATCAGTC
CCAAGTTCAAATCCCTTCTCTTGCAAATAATTTAATTTTTTGACAAAAACCCTTGTTTTAATGTG
TGTGTCATCCAAGACTAGTAAACCTAGGTATAAGTATTATTTTTTCACAAATAATCAGCCTTTAA
TCCTCCTCCTCATTGCCCTACTCATTCCTCTCCTCCTCTCATTCTATTTGATTTTAATGTTTTTT
TCCTTTCCTCTATTGTTGTTGTCGCCTACACCTCCCATTTTACCATCTCTTTCTTCTTCTTTTTG
TATCAAGATTGTGCACCATCTCCTTTAATCTATTGCTTCCATTTATCCTCATCTAAATCAGCACC
AAATCTGAAATCTTGAACTCCAAGATCGATC
Found at i:24295019 original size:26 final size:26
Alignment explanation
Indices: 24294983--24295066 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
24294973 TGATACAAAT
24294983 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
24295009 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
24295035 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
24295061 TGATAA
1 TGATAA
24295067 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:24300425 original size:7 final size:7
Alignment explanation
Indices: 24300413--24300438 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
24300403 GATATAATTA
24300413 ATATGTG
1 ATATGTG
24300420 ATATGTG
1 ATATGTG
24300427 ATATGTG
1 ATATGTG
24300434 ATATG
1 ATATG
24300439 AATATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (7 bp):
ATATGTG
Found at i:24301108 original size:20 final size:21
Alignment explanation
Indices: 24301070--24301109 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
24301060 AGTTGAAACG
*
24301070 AGAAAGAATTTGATGTGATAGT
1 AGAAAGAA-TTGATATGATAGT
24301092 AGAAAGAA-TGATATGATA
1 AGAAAGAATTGATATGATA
24301110 TGTTTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
22 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (21 bp):
AGAAAGAATTGATATGATAGT
Found at i:24302307 original size:38 final size:39
Alignment explanation
Indices: 24302256--24302350 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 39
24302246 ACCATCTCTG
* * * *
24302256 TCCAACCCAACACACCA-TGTGGGGATAGAA-TCAACCCA
1 TCCAACCCTACACACCAGTATAGGAATA-AAGTCAACCCA
* *
24302294 TCCAGCCCTACACACCAAGTATAGGAATAAAGTCGACCCA
1 TCCAACCCTACACACC-AGTATAGGAATAAAGTCAACCCA
24302334 TCCAACCCTACACACCA
1 TCCAACCCTACACACCA
24302351 AATGGTACCT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
38 14 0.30
39 4 0.09
40 29 0.62
ACGTcount: A:0.37, C:0.37, G:0.13, T:0.14
Consensus pattern (39 bp):
TCCAACCCTACACACCAGTATAGGAATAAAGTCAACCCA
Found at i:24304779 original size:10 final size:10
Alignment explanation
Indices: 24304764--24304799 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
24304754 TAATTCTAGG
24304764 ATTTAT-TTT
1 ATTTATCTTT
24304773 CATTTATCTTT
1 -ATTTATCTTT
24304784 ATTTATCTTT
1 ATTTATCTTT
24304794 ATTTAT
1 ATTTAT
24304800 TTGTGATCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 22 0.88
11 3 0.12
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTATCTTT
Done.