Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 159 of 206
Found at i:48110248 original size:159 final size:158
Alignment explanation
Indices: 48109895--48110439 Score: 826
Period size: 159 Copynumber: 3.4 Consensus size: 158
48109885 GGCGGCACCC
* * * *
48109895 CCCTTTGTTTC-TATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATAATATCTTCGTA
1 CCCTTTG-TTCGTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATATTATTTTCATA
* * *
48109959 TTTTATTATTTTATATTATTTTATTACATAAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTAT
65 TTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTAT
*
48110024 ATAAATTTAGTAAAAAACCCTTATTTTGA
130 ATAAATTTAGTAAAAAACCCTTATTTTGG
* *
48110053 CCATTTGTTCGTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATATTATTTTTATAT
1 CCCTTTGTTCGTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATATTATTTTCATAT
48110118 TTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTAT
66 TTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTG-TTTTTTAT
* *
48110183 GTAAATTTAGTAAAAAACCCTTACTTTGG
130 ATAAATTTAGTAAAAAACCCTTATTTTGG
* **
48110212 CCCTTTGTTCGTATTTTTCTTATTTTCAGATTTTATTATTTTCAAAAAATATATTATTTTTGTAT
1 CCCTTTGTTCGTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATATTATTTTCATAT
*
48110277 TTTATTATTTTATATTATTTTAGTACATAATATTTGAAATGTATTATTTTAGTGTGTTTTTTATA
66 TTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATA
* *
48110342 TAAATTTAGT-GAAAACCCTTATTTTAG
131 TAAATTTAGTAAAAAACCCTTATTTTGG
** ** * *
48110369 CCCTTTGTTCGTATTTTTCTT-TTTTTTGAATTTTATTACTTTCAGTAAATATACTATTTTCATT
1 CCCTTTGTTCGTATTTTTCTTATTTTCAG-ATTTTATTACTTTCAAAAAATATATTATTTTCATA
48110433 TTTTATT
65 TTTTATT
48110440 TCTTTTCGTA
Statistics
Matches: 355, Mismatches: 29, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
156 5 0.01
157 73 0.21
158 126 0.35
159 151 0.43
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (158 bp):
CCCTTTGTTCGTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATATTATTTTCATAT
TTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATA
TAAATTTAGTAAAAAACCCTTATTTTGG
Found at i:48111619 original size:29 final size:29
Alignment explanation
Indices: 48111554--48111619 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
48111544 GATTTCGCGG
*
48111554 AAAATGGCCCATTCCGGTAAATAATCAAA
1 AAAACGGCCCATTCCGGTAAATAATCAAA
* * ** *
48111583 AAATCGGCCCATTTCGGTAAATTTTGAAA
1 AAAACGGCCCATTCCGGTAAATAATCAAA
48111612 AAAACGGC
1 AAAACGGC
48111620 TTTTATTGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.23
Consensus pattern (29 bp):
AAAACGGCCCATTCCGGTAAATAATCAAA
Found at i:48111694 original size:27 final size:27
Alignment explanation
Indices: 48111647--48111710 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
48111637 CCTAAAGGGG
* * * *
48111647 GGTGCCGCCTGTGGCAGTGGCACCTTT
1 GGTGCCGCCTCTGCCACTGGCACCATT
48111674 GGTGCCGCCTCTGCCACTGGCACCATT
1 GGTGCCGCCTCTGCCACTGGCACCATT
*
48111701 GGTGTCGCCT
1 GGTGCCGCCT
48111711 GTGGCAATCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.08, C:0.34, G:0.33, T:0.25
Consensus pattern (27 bp):
GGTGCCGCCTCTGCCACTGGCACCATT
Found at i:48111866 original size:17 final size:17
Alignment explanation
Indices: 48111844--48111878 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
48111834 ATAATTAAGT
48111844 TTTAAATAATAAACATA
1 TTTAAATAATAAACATA
* *
48111861 TTTAAATATTATACATA
1 TTTAAATAATAAACATA
48111878 T
1 T
48111879 GTGTATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTAAATAATAAACATA
Found at i:48116137 original size:15 final size:16
Alignment explanation
Indices: 48116109--48116138 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48116099 TAAATTCATA
48116109 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
48116125 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
48116139 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:48116164 original size:16 final size:17
Alignment explanation
Indices: 48116131--48116291 Score: 59
Period size: 18 Copynumber: 9.1 Consensus size: 17
48116121 TTATTAAGAA
48116131 TTTTATTAAATTATATAT
1 TTTTATTAAA-TATATAT
48116149 TTTTATTAAA-ATATAT
1 TTTTATTAAATATATAT
** *
48116165 TTAATATATT-TTTAT-TAAA
1 TT--T-TATTAAATATAT-AT
* *
48116184 TTATATTTAATA-ATAAT
1 TTTTATTAAATATAT-AT
*
48116201 TATT-TTAAAT-TATAT
1 TTTTATTAAATATATAT
* *
48116216 TTTATAGTATTATATATTAT
1 TTT-TATTA-AATATA-TAT
*
48116236 GATTTTAGTAAAT-TCATAT
1 --TTTTATTAAATAT-ATAT
48116255 ATTTTATTAAATTATATAT
1 -TTTTATTAAA-TATATAT
48116274 TTTTATTAAAT-TATAT
1 TTTTATTAAATATATAT
48116290 TT
1 TT
48116292 AATAATAATT
Statistics
Matches: 110, Mismatches: 15, Indels: 38
0.67 0.09 0.23
Matches are distributed among these distances:
15 4 0.04
16 27 0.25
17 10 0.09
18 34 0.31
19 20 0.18
20 7 0.06
21 5 0.05
22 3 0.03
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.58
Consensus pattern (17 bp):
TTTTATTAAATATATAT
Found at i:48116215 original size:26 final size:25
Alignment explanation
Indices: 48116143--48116303 Score: 111
Period size: 25 Copynumber: 6.5 Consensus size: 25
48116133 TTATTAAATT
* *
48116143 ATATATTTTTATTAAAATATATTTA
1 ATATATTATTATTAAATTATATTTA
*
48116168 ATATATTTTTATTAAATTATATTTA
1 ATATATTATTATTAAATTATATTTA
48116193 ATAATAATTATT-TTAAATTATATTT-
1 AT-AT-ATTATTATTAAATTATATTTA
* *
48116218 -TATAGTATTA-TATATTATGATTTTA
1 ATATATTATTATTAAATTAT-A-TTTA
* * ** *
48116243 GTAAATTCATATATTTTATTA-AATT-
1 ATATATT-AT-TATTAAATTATATTTA
*
48116268 ATATATTTTTATTAAATTATATTTA
1 ATATATTATTATTAAATTATATTTA
*
48116293 ATA-ATAATTAT
1 ATATATTATTAT
48116304 GTTAAAATAT
Statistics
Matches: 108, Mismatches: 16, Indels: 25
0.72 0.11 0.17
Matches are distributed among these distances:
22 12 0.11
23 11 0.10
24 14 0.13
25 34 0.31
26 21 0.19
27 8 0.07
28 2 0.02
29 6 0.06
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.56
Consensus pattern (25 bp):
ATATATTATTATTAAATTATATTTA
Found at i:48116325 original size:145 final size:143
Alignment explanation
Indices: 48116038--48116299 Score: 370
Period size: 145 Copynumber: 1.8 Consensus size: 143
48116028 TGTTGGTTCA
48116038 TATATTTAATAATAATTATTTTAAAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAA
1 TATATTTAATAATAATTATTTT-AAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAA
** * *
48116103 TTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATATTTTTATTAAAATATATTTA
65 TTCATAT---AATATTTATTATTAAGAATTTTATTAAATTATATATTAATAATAAAATATATTAA
*
48116168 ATATATTTTTATTAAAT
127 ATATATTATTATTAAAT
48116185 TATATTTAATAATAATTATTTT-AAATTATATTTTATAGTATTATATATTATGATTTTAGTAAAT
1 TATATTTAATAATAATTATTTTAAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAAT
* *
48116249 TCATAT-AT-TTTATTAAATTATATATTTTTATTAAATTATAT-TTAATAATAA
66 TCATATAATATTTATT--ATTA-AGAATTTTATTAAATTATATATTAATAATAA
48116300 TTATGTTAAA
Statistics
Matches: 107, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
140 6 0.06
141 2 0.02
142 11 0.10
143 18 0.17
145 48 0.45
147 22 0.21
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (143 bp):
TATATTTAATAATAATTATTTTAAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAAT
TCATATAATATTTATTATTAAGAATTTTATTAAATTATATATTAATAATAAAATATATTAAATAT
ATTATTATTAAAT
Found at i:48116536 original size:16 final size:16
Alignment explanation
Indices: 48116515--48116567 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
48116505 AGAATTACCT
48116515 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
48116531 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
*
48116547 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
48116563 ATTAC
1 ATTAC
48116568 AGTGAACCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.25, C:0.34, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:48118089 original size:18 final size:18
Alignment explanation
Indices: 48118051--48118086 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
48118041 TTATTATTTT
*
48118051 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
48118069 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
48118087 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:48122652 original size:21 final size:21
Alignment explanation
Indices: 48122626--48122673 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
48122616 ATTGGGTGGA
48122626 TCAGCTCTCACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
* *
48122647 TCAGCTCTTACGAGTTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
*
48122668 TTAGCT
1 TCAGCT
48122674 TTCAAGCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.40
Consensus pattern (21 bp):
TCAGCTCTCACGAGCTTCTGT
Found at i:48128850 original size:29 final size:29
Alignment explanation
Indices: 48128808--48128865 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
48128798 GACAAAGTAC
48128808 GCAGTTATGGTGAGACACTTGTGAAACTA
1 GCAGTTATGGTGAGACACTTGTGAAACTA
48128837 GCAGTTATGGTGAGACACTTGTGAAACTA
1 GCAGTTATGGTGAGACACTTGTGAAACTA
48128866 CCAAAGCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (29 bp):
GCAGTTATGGTGAGACACTTGTGAAACTA
Found at i:48133512 original size:50 final size:50
Alignment explanation
Indices: 48133437--48133538 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
48133427 TTATATGTCA
48133437 TAGTCTACTCAAGATATCAAGGAACATGGGATGGACTATGCAAGTGTGAC
1 TAGTCTACTCAAGATATCAAGGAACATGGGATGGACTATGCAAGTGTGAC
48133487 TAGTCTACTCAAGATATCAAGGAACATGGGATGGACTATGCAAGTGTGAC
1 TAGTCTACTCAAGATATCAAGGAACATGGGATGGACTATGCAAGTGTGAC
48133537 TA
1 TA
48133539 TTCCATAACT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (50 bp):
TAGTCTACTCAAGATATCAAGGAACATGGGATGGACTATGCAAGTGTGAC
Found at i:48137170 original size:38 final size:38
Alignment explanation
Indices: 48137123--48137195 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
48137113 ATGTTTTTAT
48137123 ATAAAAGAATATTTGTTAGGAAAAAAGGAAAAAAATAA
1 ATAAAAGAATATTTGTTAGGAAAAAAGGAAAAAAATAA
48137161 ATAAAAGAATATTTGTTAGGAAAAAAGGAAAAAAA
1 ATAAAAGAATATTTGTTAGGAAAAAAGGAAAAAAA
48137196 AATAAATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.63, C:0.00, G:0.16, T:0.21
Consensus pattern (38 bp):
ATAAAAGAATATTTGTTAGGAAAAAAGGAAAAAAATAA
Found at i:48138697 original size:44 final size:44
Alignment explanation
Indices: 48138649--48139304 Score: 297
Period size: 44 Copynumber: 14.9 Consensus size: 44
48138639 AGGAACTAGT
* *
48138649 GCTTCAATCTACACCACTGCAACTTCAGGGAGATAAGACTTATA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATA
* * **
48138693 GCTTCCTTAAGTCTGCTCCATTGCAA-TATCAAGGAGATAAGACCCGAT-
1 GCTT-C--AA-TCTGCTCCACTGCAACT-TCAGGGAGATAAGA-CTTATA
* * * * * *
48138741 G---CGATCTACTCTACTACAACTTCAGAGAGATAAGA-TCCA-A
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TATA
* * * * * *
48138781 GGTTTTAATCCGCTCCATTGCAACTTCAGGGAGATAGGA-TTATCG
1 -GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTAT-A
* * * *
48138826 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-ATA
* *
48138871 TCTTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTACTTA
1 GCTTCAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTA--TA
* * * *
48138917 -CTT-AGTCTGCTCCACTGCAACTTCAAGGAGATAGGA-TTATCG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTAT-A
* * * *
48138959 GC-TCTAATCTGGTCCGCTGCAACTTCAGGGAGATAAGATTTACCA
1 GCTTC-AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTA-TA
* * * *
48139004 TCTTCAGTCTAC-CTCACTGCAACTTCA-GGAGGATAAGACTTGATT
1 GCTTCAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTT-ATA
*
48139049 GCTT-AGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC---TA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATA
* * * * * * *
48139089 GATGCGATCTGCT-CTCTGCAACTTCAGAGAGATAAGA-TCCAAA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TATA
* * * * * * *
48139132 GTTTTAATCTGTTCCACTGTAACCTCAGGGAGATAGGA-TTATC
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATA
* * **
48139175 GACTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCA-A
1 G-CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT--ATA
* * *
48139221 TCTTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTA
1 GCTTCAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTT--ATA
* ** * *
48139267 -CTT-AGTCTGCTTTACTGCAACTTCAAGAAGATAAGACT
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT
48139305 AGATGGGATC
Statistics
Matches: 465, Mismatches: 97, Indels: 100
0.70 0.15 0.15
Matches are distributed among these distances:
40 26 0.06
41 31 0.07
42 3 0.01
43 16 0.03
44 235 0.51
45 114 0.25
46 7 0.02
47 4 0.01
48 26 0.06
49 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATA
Found at i:48138929 original size:133 final size:133
Alignment explanation
Indices: 48138792--48139082 Score: 476
Period size: 133 Copynumber: 2.2 Consensus size: 133
48138782 GTTTTAATCC
* *
48138792 GCTCCATTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTACTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCTAATCTACTCCACTGCAACTTCAGGGA
* * *
48138857 GATAAGATTTGCTATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT-ACTTACTTA
66 GATAAGATTTACCATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGA-TTACTTA
48138921 GTCT
130 GTCT
* ** *
48138925 GCTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTCTAATCTGGTCCGCTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCTAATCTACTCCACTGCAACTTCAGGGA
*
48138990 GATAAGATTTACCATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGATTGCTTAG
66 GATAAGATTTACCATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTAG
48139055 TCT
131 TCT
48139058 GCTCCACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
48139083 AGACTAGATG
Statistics
Matches: 146, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
133 145 0.99
134 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (133 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCTAATCTACTCCACTGCAACTTCAGGGA
GATAAGATTTACCATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTAG
TCT
Found at i:48139172 original size:217 final size:217
Alignment explanation
Indices: 48138922--48139390 Score: 715
Period size: 217 Copynumber: 2.2 Consensus size: 217
48138912 ACTTACTTAG
* * * * *
48138922 TCTGCTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTCTAATCTGGTCCGCTGCAACTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTCTAACCTGCTCCACTGCAACTTCAG
* *
48138987 GGAGATAAGATTTACCATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGATTGCT
66 GGAGATAAGATTTACAATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGATTACT
* *
48139052 TAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
131 TAGTCTGCTCCACTGCAACTTCAAGAAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
48139117 GAGATAAGATCCAA-AGTTTTAA
196 GAGATAAGATCCAATA-TTTTAA
* * * *
48139139 TCTGTTCCACTGTAACCTCAGGGAGATAGGATTATCGACTTTAACCTGCTCCACTGCAACTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTCTAACCTGCTCCACTGCAACTTCAG
* * * *
48139204 GGAGATAAGGTTTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACT
66 GGAGATAAGATTTACAATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGATTACT
** * *
48139269 TAGTCTGCTTTACTGCAACTTCAAGAAGATAAGACTAGATGGGATCTGCTCTCTGTAACTTCAGA
131 TAGTCTGCTCCACTGCAACTTCAAGAAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
48139334 GAGATAAGATCCAATATTTTAA
196 GAGATAAGATCCAATATTTTAA
**
48139356 TCCACTCCACTGCAACTTCAGGGAGATAGGATTAT
1 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTAT
48139391 TGGCCATGGA
Statistics
Matches: 225, Mismatches: 26, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
217 224 1.00
218 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTCTAACCTGCTCCACTGCAACTTCAG
GGAGATAAGATTTACAATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGATTACT
TAGTCTGCTCCACTGCAACTTCAAGAAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
GAGATAAGATCCAATATTTTAA
Found at i:48151277 original size:4 final size:4
Alignment explanation
Indices: 48151268--48151317 Score: 55
Period size: 4 Copynumber: 11.8 Consensus size: 4
48151258 TAATGCATAC
* *
48151268 AAAT AAAT AAAT AAAT AAAT AAAT AAAACT AATAT ACAT AAAA AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAA-T AA-AT AAAT AAAT AAAT AAA
48151318 CAATGACATG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 30 0.77
5 7 0.18
6 2 0.05
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:48153452 original size:3 final size:3
Alignment explanation
Indices: 48153444--48153470 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
48153434 TTTCAATTCG
48153444 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
48153471 AAACTTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:48155188 original size:25 final size:25
Alignment explanation
Indices: 48155148--48155197 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
48155138 TCTTTTCCAA
48155148 TCATTTACGATAATTACTATTTGTT
1 TCATTTACGATAATTACTATTTGTT
* *
48155173 TCATTTACTATTATTACTATTTGTT
1 TCATTTACGATAATTACTATTTGTT
48155198 ATTTTCTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (25 bp):
TCATTTACGATAATTACTATTTGTT
Found at i:48164868 original size:18 final size:18
Alignment explanation
Indices: 48164848--48164911 Score: 76
Period size: 18 Copynumber: 3.4 Consensus size: 18
48164838 TTTAAAATAT
48164848 AAATTTTGGAATTTTTATA
1 AAATTTT-GAATTTTTATA
48164867 AAATTTTGAATTTTTGA-A
1 AAATTTTGAATTTTT-ATA
*
48164885 AATTATTTTGAATTTTTTTA
1 AA--ATTTTGAATTTTTATA
48164905 AAATTTT
1 AAATTTT
48164912 TGTTGAGAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
18 16 0.40
19 8 0.20
20 16 0.40
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (18 bp):
AAATTTTGAATTTTTATA
Found at i:48166160 original size:34 final size:34
Alignment explanation
Indices: 48166098--48166162 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
48166088 CATGTTCAAA
* * *
48166098 ACAGATCAATACAGTAGCATTTAATATGCTTTTG
1 ACAGAACAATACAGTAGCAATCAATATGCTTTTG
*
48166132 ACAGAACAATACAGTAGCAATCATTATGCTT
1 ACAGAACAATACAGTAGCAATCAATATGCTT
48166163 ATAACAGTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (34 bp):
ACAGAACAATACAGTAGCAATCAATATGCTTTTG
Found at i:48171396 original size:31 final size:31
Alignment explanation
Indices: 48171361--48171422 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
48171351 AGGTAAATTA
48171361 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
48171392 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
48171423 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:48177331 original size:3 final size:3
Alignment explanation
Indices: 48177318--48177349 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
48177308 AAATTAGTTA
*
48177318 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
48177350 AAGGATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:48177688 original size:31 final size:31
Alignment explanation
Indices: 48177650--48177711 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
48177640 AGGCAAATTA
48177650 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
48177681 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
48177712 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:48187792 original size:3 final size:3
Alignment explanation
Indices: 48187784--48187808 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
48187774 CTCTGTGGGA
48187784 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
48187809 TGGGATCCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:48189369 original size:16 final size:15
Alignment explanation
Indices: 48189344--48189377 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
48189334 AAAGTTGATA
*
48189344 ATAATTAATATATATT
1 ATAATAAATATA-ATT
48189360 ATAATAAATATAATT
1 ATAATAAATATAATT
48189375 ATA
1 ATA
48189378 TATCAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:48189377 original size:22 final size:19
Alignment explanation
Indices: 48189341--48189380 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 19
48189331 ATCAAAGTTG
48189341 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
48189360 ATAATAAATATAATTATATAT
1 ATAAT-AAT-TAA-TATATAT
48189381 CAGTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 3 0.17
21 3 0.17
22 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:48189499 original size:30 final size:30
Alignment explanation
Indices: 48189444--48189502 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
48189434 TTCCTTTGAA
*
48189444 AATATTTACAAAAAAAGACAGCTAATTTTT
1 AATATTTACAAAAAAAGACACCTAATTTTT
*
48189474 AATATTTACAGAAAAAG-CAACCTAATTTT
1 AATATTTACAAAAAAAGAC-ACCTAATTTT
48189503 GCAACGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAAAGACACCTAATTTTT
Found at i:48191353 original size:18 final size:18
Alignment explanation
Indices: 48191330--48191368 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
48191320 CCTACAAAGT
48191330 AAGATCGAAACTTGTCAA
1 AAGATCGAAACTTGTCAA
48191348 AAGATCGAAACTTGTCAA
1 AAGATCGAAACTTGTCAA
48191366 AAG
1 AAG
48191369 CAAACACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.21
Consensus pattern (18 bp):
AAGATCGAAACTTGTCAA
Found at i:48199472 original size:37 final size:36
Alignment explanation
Indices: 48199421--48199537 Score: 106
Period size: 37 Copynumber: 3.3 Consensus size: 36
48199411 ATTTCAAAAA
*
48199421 TAATATTATTTTAATAGTTTAATATTAAATTAAATT
1 TAATATTATCTTAATAGTTTAATATTAAATTAAATT
*
48199457 TAATACTTATCTTAATAG--T-AT-TT-TATT-AATT
1 TAATA-TTATCTTAATAGTTTAATATTAAATTAAATT
*
48199488 TAATATTAAAT-TTATTA-TCTTAATATTAAATTAAATT
1 TAATATT--ATCTTAATAGT-TTAATATTAAATTAAATT
48199525 TAATATTTATCTT
1 TAATA-TTATCTT
48199538 GTAGATAAGT
Statistics
Matches: 65, Mismatches: 4, Indels: 23
0.71 0.04 0.25
Matches are distributed among these distances:
30 2 0.03
31 14 0.22
32 5 0.08
33 3 0.05
34 4 0.06
35 3 0.05
36 10 0.15
37 22 0.34
38 2 0.03
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGTTTAATATTAAATTAAATT
Found at i:48199503 original size:20 final size:20
Alignment explanation
Indices: 48199478--48199531 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
48199468 TTAATAGTAT
48199478 TTTATTAATTTAATATTAAA
1 TTTATTAATTTAATATTAAA
48199498 TTTATT-ATCTTAATATTAAA
1 TTTATTAAT-TTAATATTAAA
48199518 -TTA--AATTTAATATT
1 TTTATTAATTTAATATT
48199532 TATCTTGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 8 0.25
18 2 0.06
19 5 0.16
20 17 0.53
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTATTAATTTAATATTAAA
Found at i:48199572 original size:61 final size:58
Alignment explanation
Indices: 48199507--48199622 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 58
48199497 ATTTATTATC
* *
48199507 TTAATATTAAATTAAATT-TAATATTTATCTTGTAGATAAGTATTCTATTAATTTAATAGAT
1 TTAATATTAAATT-AATTATAATATTTATC-T-T-GATAAGTATTATATTAATCTAATAGAT
*
48199568 TTAATATTAAATTTATTATAATATTTATCTTGATAAGTATTATATTAATCTAATA
1 TTAATATTAAATTAATTATAATATTTATCTTGATAAGTATTATATTAATCTAATA
48199623 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
58 22 0.43
59 1 0.02
60 4 0.08
61 24 0.47
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (58 bp):
TTAATATTAAATTAATTATAATATTTATCTTGATAAGTATTATATTAATCTAATAGAT
Found at i:48199635 original size:58 final size:60
Alignment explanation
Indices: 48199509--48199641 Score: 150
Period size: 58 Copynumber: 2.2 Consensus size: 60
48199499 TTATTATCTT
* * *
48199509 AATATTAAATTAAATTTAATATTTATCTTGTAGATAAGTATTCTATTAATTTAATAGATTT
1 AATATTAAATTAAATTTAATATTTATCTTGTAGATAAGTATTATATTAATCTAATA-ATTA
*
48199570 AATATTAAATT-TATTATAATATTTATC-T-T-GATAAGTATTATATTAATCTAAT-ATTA
1 AATATTAAATTAAATT-TAATATTTATCTTGTAGATAAGTATTATATTAATCTAATAATTA
48199626 AAGTGATTAAACTTAA
1 AA-T-ATTAAA-TTAA
48199642 TCATAGTTGA
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
56 5 0.08
57 1 0.02
58 27 0.44
59 3 0.05
60 4 0.06
61 22 0.35
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (60 bp):
AATATTAAATTAAATTTAATATTTATCTTGTAGATAAGTATTATATTAATCTAATAATTA
Found at i:48201463 original size:519 final size:519
Alignment explanation
Indices: 48200484--48201507 Score: 1705
Period size: 519 Copynumber: 2.0 Consensus size: 519
48200474 CATGAATCTG
48200484 AGATAGAAAAGTTTATTGTGATTAATTTCTATGATTTACCGATTGATTGGATGCATGTGTTAGAA
1 AGATAGAAAAGTTTATTGTGATTAATTTCTATGATTTACCGATTGATTGGATGCATGTGTTAGAA
* * * *
48200549 TACCAATAAGAAATTTCAGTGATTGCATGTCTAAATTGCATATTAGGGTTTAATTGCAAAAATGG
66 TACCAATAAGAAATTTCAGCGATTGCATGTCTAAATTGCACAATAGGATTTAATTGCAAAAATGG
*
48200614 GTAAATATGAGTTTTATATGATAAAGGATTTAATAGAAATGCATAATTGAAGTAGAGGTCCATAA
131 GTAAATATGAGTTTTAGATGATAAAGGATTTAATAGAAATGCATAATTGAAGTAGAGGTCCATAA
48200679 ATGGTAATTAGACCATTAGATTTTCATGGACAAAAATGGGCATGCATAGATAAAAATAACTAAAG
196 ATGGTAATTAGACCATTAGATTTTCATGGACAAAAATGGGCATGCATAGATAAAAATAACTAAAG
* *
48200744 TTTTAATGAAGGGCATTTTAGTCATTTGGTAATAAAAAGAATTAAAAGGGAAAAAGATGGCAAAA
261 TTTTAATGAAGGGCATTTTAGTCAATTGGTAATAAAAAGAATTAAAAGGGAAAAAGATGGAAAAA
* * * *
48200809 TATGCTCATCTTCTTCCATAGGGCCGAAATTTCAAGAGGCACTATATCTAGGATTTCTTCACTTT
326 TATGCTCATCTTCTTCCATAGGGCCGAAATTTCAAGAGACACGAAAGCTAGGATTTCTTCACTTT
* *
48200874 CTCAAGCTCATAGTAAGTGCATCCAAGCCCAGTTTTTAATGTTTTTTTACGTTTTTGAAGTCCTC
391 CTCAAGCTCATAGTAACTGCATCCAAGCCCAGTTTTTAATGTTTTTTTACGTTTTTGAAGTCATC
48200939 GTAGCTCAATTTAGCTTATTCTACCATTAATTCATGTTAGGGTTCATATTCTACCACGAATCCA
456 GTAGCTCAATTTAGCTTATTCTACCATTAATTCATGTTAGGGTTCATATTCTACCACGAATCCA
* *
48201003 AGATAGAAATGTTTATTGTGATTAAATTT-TATGATTTACTGATTGATTGGATGCATGTGTTAGA
1 AGATAGAAAAGTTTATTGTGATT-AATTTCTATGATTTACCGATTGATTGGATGCATGTGTTAGA
* * *
48201067 ATACCGATAAGAAATTTCAGCGATTGCATGTCTGAATTGCACAATAGGATTTAATTGCAAAAGTG
65 ATACCAATAAGAAATTTCAGCGATTGCATGTCTAAATTGCACAATAGGATTTAATTGCAAAAATG
* * * * * *
48201132 GGTAAATATGAGTTTTAGATGATAAAGGATTTAATTGAAGTGCATTATTGAAGTAGAGGTTCTTC
130 GGTAAATATGAGTTTTAGATGATAAAGGATTTAATAGAAATGCATAATTGAAGTAGAGGTCCATA
48201197 AATGGTAATTAGACCATTAGATTTTCATGGACAAAAATGGGCATGCATAGATAAAAATAACTAAA
195 AATGGTAATTAGACCATTAGATTTTCATGGACAAAAATGGGCATGCATAGATAAAAATAACTAAA
48201262 GTTTTAATGAAGGGCATTTTAGTCAATTGGTAATAAAAAGAATTAAAAGGGAAAAAGATGGAAAA
260 GTTTTAATGAAGGGCATTTTAGTCAATTGGTAATAAAAAGAATTAAAAGGGAAAAAGATGGAAAA
* * *
48201327 ATGTGCTCATCTTC-TCCATAAGGGCCG-AATTTCAAGAGACTCGAAAGCTAGGGTTTCTTCACT
325 ATATGCTCATCTTCTTCCAT-AGGGCCGAAATTTCAAGAGACACGAAAGCTAGGATTTCTTCACT
* * *
48201390 TTCTCAAGCTCATAGTAACTGCATCCAAGCCCCA-TTTTTAATTTTTTTTTTATGTTTTTGGAGT
389 TTCTCAAGCTCATAGTAACTGCATCCAAG-CCCAGTTTTTAA-TGTTTTTTTACGTTTTTGAAGT
*
48201454 CATCGTAGCTCGATTTAGCTTATTCTACCATTAATTCATGTTAGGGTTCATATT
452 CATCGTAGCTCAATTTAGCTTATTCTACCATTAATTCATGTTAGGGTTCATATT
48201508 TGGAAAAATA
Statistics
Matches: 470, Mismatches: 31, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
518 70 0.15
519 395 0.84
520 5 0.01
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (519 bp):
AGATAGAAAAGTTTATTGTGATTAATTTCTATGATTTACCGATTGATTGGATGCATGTGTTAGAA
TACCAATAAGAAATTTCAGCGATTGCATGTCTAAATTGCACAATAGGATTTAATTGCAAAAATGG
GTAAATATGAGTTTTAGATGATAAAGGATTTAATAGAAATGCATAATTGAAGTAGAGGTCCATAA
ATGGTAATTAGACCATTAGATTTTCATGGACAAAAATGGGCATGCATAGATAAAAATAACTAAAG
TTTTAATGAAGGGCATTTTAGTCAATTGGTAATAAAAAGAATTAAAAGGGAAAAAGATGGAAAAA
TATGCTCATCTTCTTCCATAGGGCCGAAATTTCAAGAGACACGAAAGCTAGGATTTCTTCACTTT
CTCAAGCTCATAGTAACTGCATCCAAGCCCAGTTTTTAATGTTTTTTTACGTTTTTGAAGTCATC
GTAGCTCAATTTAGCTTATTCTACCATTAATTCATGTTAGGGTTCATATTCTACCACGAATCCA
Found at i:48202272 original size:50 final size:50
Alignment explanation
Indices: 48202154--48202398 Score: 201
Period size: 50 Copynumber: 4.8 Consensus size: 50
48202144 TTAAGGGAAT
* * ** *
48202154 GAGATCCCATGTAAGACCATGTTTGGGACATGACATTGGCATTATTGGGTTATGA
1 GAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---AG--ATGA
* * *
48202209 GAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGA
1 GAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGA
* * * *
48202259 GAGATCCC-TCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGA
1 GAGATCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGA
* * * * **
48202309 GA-ACTCCCATGTAATACCATATCTGAGATATGGCATTGGCAGTACAG--GA
1 GAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-AGATGA
* * *
48202358 AACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
48202399 TGTTATTATC
Statistics
Matches: 154, Mismatches: 31, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
49 36 0.23
50 78 0.51
51 2 0.01
52 1 0.01
55 37 0.24
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (50 bp):
GAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGA
Found at i:48204002 original size:16 final size:16
Alignment explanation
Indices: 48203981--48204030 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
48203971 TTATTCTTTA
48203981 CTTACTCTCTTACTTG
1 CTTACTCTCTTACTTG
48203997 CTTA----CTTACTTG
1 CTTACTCTCTTACTTG
48204009 CTTACTCTCTTACTTG
1 CTTACTCTCTTACTTG
*
48204025 TTTACT
1 CTTACT
48204031 TACTTTCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
12 12 0.41
16 17 0.59
ACGTcount: A:0.14, C:0.28, G:0.06, T:0.52
Consensus pattern (16 bp):
CTTACTCTCTTACTTG
Found at i:48204003 original size:20 final size:20
Alignment explanation
Indices: 48203967--48204023 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
48203957 ATCATGGTCT
*
48203967 TTGCTTATTCT-TTACTTAC
1 TTGCTTACTCTCTTACTTAC
48203986 TCT-CTTACT-TGCTTACTTAC
1 T-TGCTTACTCT-CTTACTTAC
48204006 TTGCTTACTCTCTTACTT
1 TTGCTTACTCTCTTACTT
48204024 GTTTACTTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
18 1 0.03
19 7 0.22
20 23 0.72
21 1 0.03
ACGTcount: A:0.14, C:0.26, G:0.05, T:0.54
Consensus pattern (20 bp):
TTGCTTACTCTCTTACTTAC
Found at i:48204015 original size:28 final size:28
Alignment explanation
Indices: 48203981--48204035 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
48203971 TTATTCTTTA
48203981 CTTACTCTCTTACTTGCTTACTTACTTG
1 CTTACTCTCTTACTTGCTTACTTACTTG
*
48204009 CTTACTCTCTTACTTGTTTACTTACTT
1 CTTACTCTCTTACTTGCTTACTTACTT
48204036 TCTTTCTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.15, C:0.27, G:0.05, T:0.53
Consensus pattern (28 bp):
CTTACTCTCTTACTTGCTTACTTACTTG
Found at i:48204387 original size:50 final size:50
Alignment explanation
Indices: 48204315--48204439 Score: 126
Period size: 50 Copynumber: 2.5 Consensus size: 50
48204305 TATCCTAGAT
* * ** * ** *
48204315 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATTCCATGTCCCAGAC
1 ATGGCCTTACAGGGGACCTCTCATATCGGTGCCAACGCCAAGTCCCAGAC
* *
48204365 ATGGCCTTAC-GGCGGACCTCTCATCTCGGTGCCAACGCCAAGTCCCAGGC
1 ATGGCCTTACAGG-GGACCTCTCATATCGGTGCCAACGCCAAGTCCCAGAC
* *
48204415 ATGGTCTTACATGGGACCTCTCATA
1 ATGGCCTTACAGGGGACCTCTCATA
48204440 AACTCAATAA
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
49 1 0.02
50 58 0.97
51 1 0.02
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
ATGGCCTTACAGGGGACCTCTCATATCGGTGCCAACGCCAAGTCCCAGAC
Found at i:48211941 original size:17 final size:19
Alignment explanation
Indices: 48211919--48211960 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
48211909 AATAACTAAG
48211919 ATAAAT-AAAA-TAAAATA
1 ATAAATAAAAACTAAAATA
*
48211936 ATAAATCAAAAACTAGAATA
1 ATAAAT-AAAAACTAAAATA
48211956 ATAAA
1 ATAAA
48211961 GAATACAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
19 4 0.19
20 11 0.52
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.21
Consensus pattern (19 bp):
ATAAATAAAAACTAAAATA
Found at i:48221619 original size:15 final size:16
Alignment explanation
Indices: 48221594--48221623 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48221584 TTATATATAT
48221594 AATATATATTTGATAG
1 AATATATATTTGATAG
48221610 AATA-ATATTTGATA
1 AATATATATTTGATA
48221624 CACCATTGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (16 bp):
AATATATATTTGATAG
Found at i:48223864 original size:41 final size:40
Alignment explanation
Indices: 48223801--48224074 Score: 287
Period size: 41 Copynumber: 6.6 Consensus size: 40
48223791 CTTTAAATGT
* * *
48223801 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAAA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAT-TAA
* * *
48223842 AAGGGGTTGTTATGTGCTGATTCCCCGTATCATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
** * * *
48223882 AAGGTGGTTTTTAAGTGCTGATTCCACTGTATCCTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGA-T-TAA
* * *
48223926 AAGGGGTTGCTATGTACTGATTCCCCGTATCATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
* * *
48223966 AAGGTGGTTGCTAAGTGTTGATTCCACTGTATCCTTGATTGTAA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGA-T-TAA
* *
48224010 AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
48224050 AAGGTGGTTGCTAAGTGCTGATTCC
1 AAGG-GGTTGCTAAGTGCTGATTCC
48224075 ACCGGGATCC
Statistics
Matches: 192, Mismatches: 32, Indels: 18
0.79 0.13 0.07
Matches are distributed among these distances:
40 16 0.08
41 89 0.46
42 40 0.21
43 36 0.19
44 11 0.06
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (40 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
Found at i:48223940 original size:84 final size:84
Alignment explanation
Indices: 48223800--48224076 Score: 425
Period size: 84 Copynumber: 3.3 Consensus size: 84
48223790 TCTTTAAATG
* * * * ** *
48223800 TAAGG-GGTTGCTAAGTGCAGATTCC-CCGAATCATTGA-TCAAAAAGGGGTTGTTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACTGTATCCTTGATTGTAAAAGGGGTTGCTATGTGCTGA
48223862 TTCCCCGTATCATTGATTA
66 TTCCCCGTATCATTGATTA
** * *
48223881 TAAGGTGGTTTTTAAGTGCTGATTCCACTGTATCCTTGATTGTGAAAGGGGTTGCTATGTACTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACTGTATCCTTGATTGTAAAAGGGGTTGCTATGTGCTGA
48223946 TTCCCCGTATCATTGATTA
66 TTCCCCGTATCATTGATTA
*
48223965 TAAGGTGGTTGCTAAGTGTTGATTCCACTGTATCCTTGATTGTAAAAGGGGTTGCTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACTGTATCCTTGATTGTAAAAGGGGTTGCTATGTGCTGA
48224030 TTCCCCGTATCATTGATTA
66 TTCCCCGTATCATTGATTA
48224049 TAAGGTGGTTGCTAAGTGCTGATTCCAC
1 TAAGGTGGTTGCTAAGTGCTGATTCCAC
48224077 CGGGATCCTT
Statistics
Matches: 176, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
81 5 0.03
82 17 0.10
83 9 0.05
84 145 0.82
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (84 bp):
TAAGGTGGTTGCTAAGTGCTGATTCCACTGTATCCTTGATTGTAAAAGGGGTTGCTATGTGCTGA
TTCCCCGTATCATTGATTA
Found at i:48231451 original size:38 final size:38
Alignment explanation
Indices: 48231367--48231454 Score: 106
Period size: 38 Copynumber: 2.3 Consensus size: 38
48231357 TTTTTTTGTT
* *
48231367 TTTCAGAATATTTTCGATTGAAGAAAATCCTATGACTA
1 TTTCAGAATATTTTCAATTGAAGAAAATCCTATCACTA
* * * *
48231405 TTGT-AGAATATTTTCAATTGAGGAAAATTCTCTCACTG
1 TT-TCAGAATATTTTCAATTGAAGAAAATCCTATCACTA
48231443 TTTCAGAATATT
1 TTTCAGAATATT
48231455 AATCATATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
37 1 0.02
38 40 0.95
39 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (38 bp):
TTTCAGAATATTTTCAATTGAAGAAAATCCTATCACTA
Found at i:48231905 original size:3 final size:3
Alignment explanation
Indices: 48231845--48231886 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
48231835 TTAAGCATAG
48231845 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
48231887 TAATGATGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:48238232 original size:23 final size:23
Alignment explanation
Indices: 48238190--48238233 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
48238180 AAAAGATAAA
*
48238190 AATAAAATAAAGAAATAAAAGTT
1 AATAAAATAAAGAAACAAAAGTT
48238213 AATAAAAT-AAGAAAACAAAAG
1 AATAAAATAAAG-AAACAAAAG
48238234 GTTTTCTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.73, C:0.02, G:0.09, T:0.16
Consensus pattern (23 bp):
AATAAAATAAAGAAACAAAAGTT
Found at i:48239387 original size:20 final size:20
Alignment explanation
Indices: 48239321--48239422 Score: 71
Period size: 20 Copynumber: 5.1 Consensus size: 20
48239311 TTGTATAGGA
*
48239321 TTTGCACTTTGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
* * * * *
48239341 TATACACTTCAGTGCCCGTA
1 TTTGCACTTCGGTGCCCCTG
* *
48239361 TTCGCACTACGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
* *
48239381 TTTGCACATT-TGTGCCCATG
1 TTTGCAC-TTCGGTGCCCCTG
* * *
48239401 TCTGCACTCCAGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
48239421 TT
1 TT
48239423 ATACATTTAT
Statistics
Matches: 58, Mismatches: 22, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
19 1 0.02
20 56 0.97
21 1 0.02
ACGTcount: A:0.13, C:0.33, G:0.21, T:0.33
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCCCTG
Found at i:48244617 original size:17 final size:15
Alignment explanation
Indices: 48244595--48244628 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
48244585 TTAAAAAAAT
48244595 ATAATAAATATATTTTC
1 ATAAT-AATAT-TTTTC
48244612 ATAATAATATTTTTC
1 ATAATAATATTTTTC
48244627 AT
1 AT
48244629 TTTTAAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 5 0.29
17 5 0.29
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (15 bp):
ATAATAATATTTTTC
Found at i:48248092 original size:296 final size:296
Alignment explanation
Indices: 48247550--48248141 Score: 950
Period size: 296 Copynumber: 2.0 Consensus size: 296
48247540 AAAATGCCCC
*
48247550 TAAAAGTTATACTTTAGCTTGGGTTGGTGTTGGACAAAAGACTTACCTTACAATAATTTTCTTCT
1 TAAAAGTTATACTTTAGCTTGGGTTGGTGTTGGACAAAAGACTTACCTTACAATAATTTTATTCT
48247615 TGCCAGGCATTGATGTCGCGACACCCTCGACAGTGATACAAGTGTGGCTCTGAGGTTCTTGGTGC
66 TGCCAGGCATTGATGTCGCGACACCCTCGACAGTGATACAAGTGTGGCTCTGAGGTTCTTGGTGC
* *
48247680 CGCGACTTCACTAGTGGTGACCATGATTTTTTTACTTCAACACCTTTAAGGATATCATGACCTTG
131 CGCGACATCACTAGTGGTGACCACGATTTTTTTACTTCAACACCTTTAAGGATATCATGACCTTG
* * * *
48247745 GAGGCTCGGTGGCAAGACATCATACCCTCAGTGTCCCAACTCTCCCAACAACTAATTTTAGGTTG
196 GAGGCTCGGTGGCAAGACATCATACCCTCAGTGTCCCAACTCTCCCAACAACCAACTTTAAGATG
* *
48247810 ATTTCTCGTTGCAGTTTTGCGCCCTCAGGGTAAAGG
261 ATTTCTCATTGCAGTTTTGCACCCTCAGGGTAAAGG
*
48247846 TAAAAGTTATATTTTAGCTTGGGTTGGTGTTGGACAAAAGACTTACCTTACAATAATTTTATTCT
1 TAAAAGTTATACTTTAGCTTGGGTTGGTGTTGGACAAAAGACTTACCTTACAATAATTTTATTCT
* * * * *
48247911 TGTCAGGCATTGATGTTGCGGCACCCTCGTCAGTGATACAAGTGTGGCTCTGAGGTTCTTGGTGT
66 TGCCAGGCATTGATGTCGCGACACCCTCGACAGTGATACAAGTGTGGCTCTGAGGTTCTTGGTGC
* *
48247976 CGCGACATCACTAGTGGTGAGCACGATTTTTTTACTTCAACACCTTTAGGGATATCATGACCTTG
131 CGCGACATCACTAGTGGTGACCACGATTTTTTTACTTCAACACCTTTAAGGATATCATGACCTTG
* *** * *
48248041 GAGGCTCGGTGGCAAGACATCATACCTTCAGTGTCGTGACTCTCTCAACAACCAGCTTTAAGATG
196 GAGGCTCGGTGGCAAGACATCATACCCTCAGTGTCCCAACTCTCCCAACAACCAACTTTAAGATG
* * *
48248106 ATTTCTCATTGTAGTTTTGCATCCTCGGGGTAAAGG
261 ATTTCTCATTGCAGTTTTGCACCCTCAGGGTAAAGG
48248142 GACTTGGTGT
Statistics
Matches: 270, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
296 270 1.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (296 bp):
TAAAAGTTATACTTTAGCTTGGGTTGGTGTTGGACAAAAGACTTACCTTACAATAATTTTATTCT
TGCCAGGCATTGATGTCGCGACACCCTCGACAGTGATACAAGTGTGGCTCTGAGGTTCTTGGTGC
CGCGACATCACTAGTGGTGACCACGATTTTTTTACTTCAACACCTTTAAGGATATCATGACCTTG
GAGGCTCGGTGGCAAGACATCATACCCTCAGTGTCCCAACTCTCCCAACAACCAACTTTAAGATG
ATTTCTCATTGCAGTTTTGCACCCTCAGGGTAAAGG
Found at i:48266384 original size:16 final size:16
Alignment explanation
Indices: 48266365--48266397 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
48266355 CTTGGAAAAT
48266365 TTAGAAGTTGGTATAA
1 TTAGAAGTTGGTATAA
48266381 TTAGAAGTTGGTATAA
1 TTAGAAGTTGGTATAA
48266397 T
1 T
48266398 CAATGCTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (16 bp):
TTAGAAGTTGGTATAA
Found at i:48271447 original size:21 final size:22
Alignment explanation
Indices: 48271422--48271465 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
48271412 CACTCTTCCT
48271422 TTTCTTCATCGATTATTGCAGG
1 TTTCTTCATCGATTATTGCAGG
48271444 TTCTTCTTCATCGATTATTGCA
1 -T-TTCTTCATCGATTATTGCA
48271466 CTGTTCACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (22 bp):
TTTCTTCATCGATTATTGCAGG
Found at i:48272926 original size:22 final size:22
Alignment explanation
Indices: 48272885--48272973 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 22
48272875 GAAGATGAAA
48272885 CTGGAAATTG--TTGCATTTGTT
1 CTGGAAATTGTTTTG-ATTTGTT
* *
48272906 -TTGATATTGTTCTTGATTTGTT
1 CTGGAAATTGTT-TTGATTTGTT
*
48272928 CTGGAAATTGTTTTGA-TAGTCT
1 CTGGAAATTGTTTTGATTTGT-T
48272950 GCTGGAAATTGTTCTTGATTTGTT
1 -CTGGAAATTGTT-TTGATTTGTT
48272974 AGTGAGTAGA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
20 7 0.13
21 3 0.06
22 12 0.22
23 24 0.44
24 5 0.09
25 3 0.06
ACGTcount: A:0.18, C:0.08, G:0.22, T:0.52
Consensus pattern (22 bp):
CTGGAAATTGTTTTGATTTGTT
Found at i:48272928 original size:106 final size:107
Alignment explanation
Indices: 48272806--48273001 Score: 369
Period size: 107 Copynumber: 1.8 Consensus size: 107
48272796 ATTGTTGCAT
48272806 TTGTTTTGATATTGTTCTGGAAATTGTTTT-ATAGTCTGCTGGAAATTGTTCTTGATTTGTTAGT
1 TTGTTTTGATATTGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAATTGTTCTTGATTTGTTAGT
48272870 GAGTAGAAGATGAAACTGGAAATTGTTGCATTTGTTTTGATA
66 GAGTAGAAGATGAAACTGGAAATTGTTGCATTTGTTTTGATA
48272912 TTGTTCTTGAT-TTGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAATTGTTCTTGATTTGTTAG
1 TTGTT-TTGATATTGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAATTGTTCTTGATTTGTTAG
48272976 TGAGTAGAAGATGAAACTGGAAATTG
65 TGAGTAGAAGATGAAACTGGAAATTG
48273002 CAAGTATAGT
Statistics
Matches: 88, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
106 24 0.27
107 64 0.73
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.45
Consensus pattern (107 bp):
TTGTTTTGATATTGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAATTGTTCTTGATTTGTTAGT
GAGTAGAAGATGAAACTGGAAATTGTTGCATTTGTTTTGATA
Found at i:48275931 original size:13 final size:13
Alignment explanation
Indices: 48275913--48275946 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
48275903 TTTTGAAGCT
48275913 AAAAAAAAT-AGCA
1 AAAAAAAATCA-CA
48275926 AAAAAAAATCACA
1 AAAAAAAATCACA
48275939 AAAAAAAA
1 AAAAAAAA
48275947 AGTTGCCTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 19 0.95
14 1 0.05
ACGTcount: A:0.82, C:0.09, G:0.03, T:0.06
Consensus pattern (13 bp):
AAAAAAAATCACA
Found at i:48284319 original size:91 final size:91
Alignment explanation
Indices: 48284207--48284407 Score: 357
Period size: 91 Copynumber: 2.2 Consensus size: 91
48284197 ATGATTTTAG
* * *
48284207 TAAATTCATATAAGAATATTTATTATTAAGAATTTTATGAAATTATATATGATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
48284272 TTCAATATTAATTATTTTAAATTATA
66 TTCAATATTAATTATTTTAAATTATA
*
48284298 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTTAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
48284363 TTTAATATTAATTATTTTAAATTATA
66 TTCAATATTAATTATTTTAAATTATA
48284389 TAAATTCATATAAGAAAAT
1 TAAATTCATATAAGAAAAT
48284408 ATTTATGAAA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 105 1.00
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTCAATATTAATTATTTTAAATTATA
Found at i:48284373 original size:16 final size:16
Alignment explanation
Indices: 48284354--48284458 Score: 53
Period size: 16 Copynumber: 6.7 Consensus size: 16
48284344 ATATCATTAT
48284354 TTAATTATATTTAATA
1 TTAATTATATTTAATA
48284370 TTAATTAT-TTTAA-A
1 TTAATTATATTTAATA
* *
48284384 TT-A-TATAAATTCATA
1 TTAATTAT-ATTTAATA
* **
48284399 TAAGAAAATATTT-ATGA
1 TTA-ATTATATTTAAT-A
*
48284416 --AATTATATATTATTA
1 TTAATTATAT-TTAATA
48284431 TTAAATTATATTTAATA
1 TT-AATTATATTTAATA
*
48284448 ATAATTATATT
1 TTAATTATATT
48284459 AAATTATACA
Statistics
Matches: 67, Mismatches: 10, Indels: 24
0.66 0.10 0.24
Matches are distributed among these distances:
12 3 0.04
13 1 0.01
14 11 0.16
15 11 0.16
16 20 0.30
17 11 0.16
18 10 0.15
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (16 bp):
TTAATTATATTTAATA
Found at i:48284381 original size:47 final size:47
Alignment explanation
Indices: 48284222--48284373 Score: 150
Period size: 47 Copynumber: 3.3 Consensus size: 47
48284212 TCATATAAGA
* * *
48284222 ATATTTATTATTAAGAATTTTATGAAATTATATATGATTATTAAATT
1 ATATTTAATATTAAGAATTTTATGAAATTATATATAATTATTTAATT
* ** * **
48284269 ATATTCAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA
1 ATATTTAATATTAAGAATTTTATGAAATTATATATAATT-ATTTAATT
* * * *
48284313 AAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTTAATT
1 ATATTTAATATTAAGAATTTTATGAAATTATATATAATTATTTAATT
48284360 ATATTTAATATTAA
1 ATATTTAATATTAA
48284374 TTATTTTAAA
Statistics
Matches: 78, Mismatches: 22, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
43 3 0.04
44 25 0.32
45 4 0.05
46 4 0.05
47 39 0.50
48 3 0.04
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.49
Consensus pattern (47 bp):
ATATTTAATATTAAGAATTTTATGAAATTATATATAATTATTTAATT
Found at i:48284424 original size:78 final size:78
Alignment explanation
Indices: 48284331--48284485 Score: 265
Period size: 78 Copynumber: 2.0 Consensus size: 78
48284321 TATCAAGAAT
* * * *
48284331 TTTATGAAATTATATATCATTATTTAATTATATTTAATATTAATTATTTTAAATTATATAAATTC
1 TTTATGAAATTATATATCATTATTAAATTATATTTAATAATAATTATATTAAATTATACAAATTC
48284396 ATATAAGAAAATA
66 ATATAAGAAAATA
*
48284409 TTTATGAAATTATATATTATTATTAAATTATATTTAATAATAATTATATTAAATTATACAAATTC
1 TTTATGAAATTATATATCATTATTAAATTATATTTAATAATAATTATATTAAATTATACAAATTC
48284474 ATATAAGAAAAT
66 ATATAAGAAAAT
48284486 TTATTACTAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (78 bp):
TTTATGAAATTATATATCATTATTAAATTATATTTAATAATAATTATATTAAATTATACAAATTC
ATATAAGAAAATA
Found at i:48284581 original size:59 final size:58
Alignment explanation
Indices: 48284493--48285036 Score: 288
Period size: 61 Copynumber: 9.2 Consensus size: 58
48284483 AATTTATTAC
* *
48284493 TAATAATTATTTTAAATT-T-TATTA-A-ATCATATATTTTAATTAAAATATATTTAA
1 TAATAATTATTTGAAATTATATTTTATATATCATATATTTTAATTAAAATATATTTAA
* * * ** * * *
48284547 TAATAATTATTTCAAATTATATTTTATACTATCATATATTATGATTTTAGTAAATTCATA
1 TAATAATTATTTGAAATTATATTTTATA-TATCATATATTTTAATTAAAATATATTTA-A
* * * *
48284607 TAAGAA-TA-TTGATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAA
1 TAATAATTATTTGA-AATT-A-TATTTTA-TATATCATATATTTTAATTAAAATATATTTAA
* * * ** * * *
48284667 TAATAATTATTTCAAATTATATTTTATACTATCATATATTATGATTTTAGTAAATTCATA
1 TAATAATTATTTGAAATTATATTTTATA-TATCATATATTTTAATTAAAATATATTTA-A
* * * *
48284727 TAAGAA-TA-TTGATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAA
1 TAATAATTATTTGA-AATT-A-TATTTTA-TATATCATATATTTTAATTAAAATATATTTAA
* * ** * * *
48284787 TAATAATTATCTT-AAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATA
1 TAATAATTAT-TTGAAATTATATTTTATA-TATCATATATTTTAATTAAAATATATTTA-A
* * * * *
48284847 TAAGAA-TA-TTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
1 TAATAATTATTTGA-AATT-A-TATTTTA-TATATCATATATTTTAATTAAAATATATTTAA
* * * ** * * *
48284907 TAATAATTATGTT-AAAATATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATA
1 TAATAATTAT-TTGAAATTATATTTTATA-TATCATATATTTTAATTAAAATATATTTA-A
* * * * * *
48284967 TAAGAA-TA-TTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATGTAA
1 TAATAATTATTTGA-AATT-A-TATTTTA-TATATCATATATTTTAATTAAAATATATTTAA
48285027 TAATAATTAT
1 TAATAATTAT
48285037 GTTAAAATAT
Statistics
Matches: 354, Mismatches: 96, Indels: 72
0.68 0.18 0.14
Matches are distributed among these distances:
54 17 0.05
55 1 0.00
56 4 0.01
57 5 0.01
58 14 0.04
59 120 0.34
60 55 0.16
61 121 0.34
62 13 0.04
63 4 0.01
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (58 bp):
TAATAATTATTTGAAATTATATTTTATATATCATATATTTTAATTAAAATATATTTAA
Found at i:48284896 original size:18 final size:17
Alignment explanation
Indices: 48284868--48284902 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48284858 ATTATTAAGA
*
48284868 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
48284885 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
48284903 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:48285016 original size:18 final size:17
Alignment explanation
Indices: 48284988--48285022 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48284978 ATTATTAAGA
*
48284988 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
48285005 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
48285023 GTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:48285046 original size:120 final size:119
Alignment explanation
Indices: 48284507--48285042 Score: 955
Period size: 120 Copynumber: 4.5 Consensus size: 119
48284497 AATTATTTTA
48284507 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTT-AAATTATATTTT
*
48284572 ATACTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
65 ATACTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
48284627 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTT-AAATTATATTTT
*
48284692 ATACTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
65 ATACTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
48284747 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAATTATATTTT
*
48284812 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
65 ATACTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
48284867 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAAATATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAATTATATTTT
*
48284932 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
65 ATACTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
48284987 AATTTTATTAAATTATATATTTTAATTAAAATATATGTAATAATAATTATGTTAAA
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAA
48285043 ATATGATTAA
Statistics
Matches: 409, Mismatches: 6, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
120 407 1.00
121 2 0.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (119 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTAAATTATATTTTA
TACTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:48290566 original size:13 final size:13
Alignment explanation
Indices: 48290548--48290572 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48290538 GAAACTTAAC
48290548 TGTAAATAATTTG
1 TGTAAATAATTTG
48290561 TGTAAATAATTT
1 TGTAAATAATTT
48290573 TACTAATATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TGTAAATAATTTG
Found at i:48304601 original size:22 final size:22
Alignment explanation
Indices: 48304573--48304615 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
48304563 TCAGAAAAAG
48304573 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTC
48304595 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
48304616 GAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTC
Found at i:48312869 original size:41 final size:41
Alignment explanation
Indices: 48312818--48312923 Score: 149
Period size: 41 Copynumber: 2.6 Consensus size: 41
48312808 ATCAGAGTGT
* * *
48312818 AAACAGGGGCACATATGTGTAATTTAGAGGTACCGAAGTCC
1 AAACAGGGGCACGTATGTGAAATTTAGAGGTACCGAAGTAC
* * *
48312859 CAACAAGGGCACGTATGTGAAATTTAGGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGAAATTTAGAGGTACCGAAGTAC
*
48312900 AAACAGGGGCACGTATGTGCAATT
1 AAACAGGGGCACGTATGTGAAATT
48312924 CATAAAATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGAAATTTAGAGGTACCGAAGTAC
Found at i:48313756 original size:14 final size:14
Alignment explanation
Indices: 48313737--48313765 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
48313727 TACTTAATCT
48313737 TATTTCTATCTTTG
1 TATTTCTATCTTTG
48313751 TATTTCTATCTTTG
1 TATTTCTATCTTTG
48313765 T
1 T
48313766 CCACTTACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TATTTCTATCTTTG
Found at i:48313949 original size:8 final size:8
Alignment explanation
Indices: 48313936--48313960 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
48313926 TTTCTAAAAT
48313936 AATAATAA
1 AATAATAA
48313944 AATAATAA
1 AATAATAA
48313952 AATAATAA
1 AATAATAA
48313960 A
1 A
48313961 TAAAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAATAA
Found at i:48324258 original size:120 final size:120
Alignment explanation
Indices: 48324045--48324287 Score: 416
Period size: 120 Copynumber: 2.0 Consensus size: 120
48324035 ATTGGACCAG
* *
48324045 ATATGAAAGAGGTCTAATAGCCCCTTATTTAATAAGGGGGACGACAAACCCTAGTAAAATTAACT
1 ATATGAAAGAAGTCCAATAGCCCCTTATTTAATAAGGGGGACGACAAACCCTAGTAAAATTAACT
48324110 AGGGTTGTCACCCCTTACAACCTAGTTGAACTAGGATTCCGTTTTTCTAGTTGAA
66 AGGGTTGTCACCCCTTACAACCTAGTTGAACTAGGATTCCGTTTTTCTAGTTGAA
* * *
48324165 ATATGGAAGAAGTCCAATAGCCCCTTATTTAATAAGGGGGATGACAAACCCTAGTATAATTAACT
1 ATATGAAAGAAGTCCAATAGCCCCTTATTTAATAAGGGGGACGACAAACCCTAGTAAAATTAACT
*
48324230 AGGGTTGTCA-CCTTCTACAACCTAGTTGAACTAGGATTCCGTTTTTCTAGTTGAA
66 AGGGTTGTCACCCCT-TACAACCTAGTTGAACTAGGATTCCGTTTTTCTAGTTGAA
48324285 ATA
1 ATA
48324288 AACTTCTATA
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
119 3 0.03
120 113 0.97
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (120 bp):
ATATGAAAGAAGTCCAATAGCCCCTTATTTAATAAGGGGGACGACAAACCCTAGTAAAATTAACT
AGGGTTGTCACCCCTTACAACCTAGTTGAACTAGGATTCCGTTTTTCTAGTTGAA
Found at i:48325052 original size:47 final size:47
Alignment explanation
Indices: 48324986--48325084 Score: 171
Period size: 47 Copynumber: 2.1 Consensus size: 47
48324976 GTTTTGTGGA
*
48324986 CATCAACATCGCAGCCCAGAGAATGAGTGATCTTGTTGATATGGGAG
1 CATCAACAGCGCAGCCCAGAGAATGAGTGATCTTGTTGATATGGGAG
* *
48325033 CATCAACAGCGTAGGCCAGAGAATGAGTGATCTTGTTGATATGGGAG
1 CATCAACAGCGCAGCCCAGAGAATGAGTGATCTTGTTGATATGGGAG
48325080 CATCA
1 CATCA
48325085 GACTTGTTCA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (47 bp):
CATCAACAGCGCAGCCCAGAGAATGAGTGATCTTGTTGATATGGGAG
Found at i:48333754 original size:43 final size:43
Alignment explanation
Indices: 48333692--48333864 Score: 186
Period size: 43 Copynumber: 4.0 Consensus size: 43
48333682 CTGTTTTTCA
* * *
48333692 AATATAATTTCTTCGATTTATCCAATGATGCACTATGTGTGCC
1 AATATAATTGCTTCAATTTATCCAATGATGCACTACGTGTGCC
** *
48333735 AATATAATTGCTTCAATTTATCGGATGATGCACTACGCGTGCC
1 AATATAATTGCTTCAATTTATCCAATGATGCACTACGTGTGCC
* ** * ** *
48333778 AATATAATTTCTTCGGTTTACCCAATGATGCACTATTTG-GACT
1 AATATAATTGCTTCAATTTATCCAATGATGCACTACGTGTG-CC
* * *
48333821 AGTATAATTGTTTCAATTTATCCAATGATACACTACGTGTGCC
1 AATATAATTGCTTCAATTTATCCAATGATGCACTACGTGTGCC
48333864 A
1 A
48333865 GTAAATTACT
Statistics
Matches: 102, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
42 1 0.01
43 100 0.98
44 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (43 bp):
AATATAATTGCTTCAATTTATCCAATGATGCACTACGTGTGCC
Found at i:48333810 original size:86 final size:86
Alignment explanation
Indices: 48333692--48333878 Score: 243
Period size: 86 Copynumber: 2.2 Consensus size: 86
48333682 CTGTTTTTCA
*
48333692 AATATAATTTCTTCGATTTATCCAATGATGCACTATGTGTG-CCAATATAATTGCTTCAATTTAT
1 AATATAATTTCTTCGATTTACCCAATGATGCACTATGTG-GACCAATATAATTGCTTCAATTTAT
** *
48333756 CGGATGATGCACTACGCGTGCC
65 CCAATGATACACTACGCGTGCC
* * * * *
48333778 AATATAATTTCTTCGGTTTACCCAATGATGCACTATTTGGACTAGTATAATTGTTTCAATTTATC
1 AATATAATTTCTTCGATTTACCCAATGATGCACTATGTGGACCAATATAATTGCTTCAATTTATC
*
48333843 CAATGATACACTACGTGTGCC
66 CAATGATACACTACGCGTGCC
* *
48333864 AGTA-AATTACTTCGA
1 AATATAATTTCTTCGA
48333879 CTTGTCCAAT
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
85 10 0.11
86 77 0.89
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (86 bp):
AATATAATTTCTTCGATTTACCCAATGATGCACTATGTGGACCAATATAATTGCTTCAATTTATC
CAATGATACACTACGCGTGCC
Found at i:48337473 original size:16 final size:16
Alignment explanation
Indices: 48337452--48337482 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48337442 CATTATATTG
48337452 TGTTATGCGAACCTAA
1 TGTTATGCGAACCTAA
*
48337468 TGTTATGTGAACCTA
1 TGTTATGCGAACCTA
48337483 TGTCATTGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (16 bp):
TGTTATGCGAACCTAA
Found at i:48346151 original size:134 final size:134
Alignment explanation
Indices: 48345842--48346513 Score: 367
Period size: 137 Copynumber: 5.0 Consensus size: 134
48345832 GCATTACAAG
* * * * * * *
48345842 AGCTCACAGCTTCAACACAGCTAGCGAACCTATGCTCCTAGCTGATGTCATAAAGGTTTGTCAGT
1 AGCTCACAACTCCGACACAGCTAGCGAACCTACGCTCCCAGTTGATGTCATAAAGGTTTGTCGGT
* * ** * *
48345907 TTAAGATTGCAACCTCTAAAGTAACTGTGGACCTACGCTACCAATTGACATTACAAGAGCTTGGA
66 TTAAGATCGCAACCTCCAAAGT-ACTGCAGACCTACACTACCAACTGACATTACAAGAGCTTGG-
48345972 AAGTTA
129 AAGTTA
* *
48345978 AGCTCACAACTCCGACACAACTAGCGAGCCTACGCTCCCAGTTGATGTCATAAAGGTTTGTCGGT
1 AGCTCACAACTCCGACACAGCTAGCGAACCTACGCTCCCAGTTGATGTCATAAAGGTTTGTCGGT
* ** * *
48346043 TTAAGATCACAACCTCCAAA-T-CTAGCAGACCTGTACTCCCAGCTGACATTACAAGAGCTCATG
66 TTAAGATCGCAACCTCCAAAGTACT-GCAGACCTACACTACCAACTGACATTACAAGAGCT--TG
*
48346106 G-AGTTT
128 GAAGTTA
* ** * * * * * *
48346112 AGCTCTCAGA-TTTGACATAGCTAGCGAACCTAGGCTCCCAATTGATGTTATAAAGGTTTATCGA
1 AGCTCACA-ACTCCGACACAGCTAGCGAACCTACGCTCCCAGTTGATGTCATAAAGGTTTGTCGG
* * * * * * *
48346176 TTTAAGATCGTAACCTCCAAAGCAACTACCGGACCTACGCTCCCAGCTGACATT-----A---T-
65 TTTAAGATCGCAACCTCCAAAG-TACT-GCAGACCTACACTACCAACTGACATTACAAGAGCTTG
48346232 -AAG---
128 GAAGTTA
* * * * * * * * * * **
48346235 AGCTCGCAGCTCCGGCACAACCAGTGGACCTACACTCCTAAATT-ATGTCATAAAGGTTTGTCAA
1 AGCTCACAACTCCGACACAGCTAGCGAACCTACGCTCC-CAGTTGATGTCATAAAGGTTTGTCGG
* * * ** * *
48346299 TTTAAGATCGCAATCTCCAAAGCAGCTAGCAGACCTGCGGT-CTCAATTGACATTACAAGAGCTC
65 TTTAAGATCGCAACCTCCAAAGTA-CT-GCAGACCTACACTAC-CAACTGACATTACAAGAGCTT
*
48346363 GTAAAGTTA
127 G-GAAGTTA
* * ** * ** * *
48346372 AGCTCGCAGCTCTAACACAGTTAGC-AGACCTACGCTCCCAACTGATGCCATAAAGGTTTGTCAG
1 AGCTCACAACTCCGACACAGCTAGCGA-ACCTACGCTCCCAGTTGATGTCATAAAGGTTTGTCGG
* * ** * * * * *
48346436 TTTAAGATCACAACCTCCAAAGCAACTAAAGGATCTACGCTCCCAATTGACATTATAAGAGCTTG
65 TTTAAGATCGCAACCTCCAAAG-TACTGCA-GACCTACACTACCAACTGACATTACAAGAGCTT-
*
48346501 GGGAGTTA
127 GGAAGTTA
48346509 AGCTC
1 AGCTC
48346514 GCAGATCCAA
Statistics
Matches: 413, Mismatches: 91, Indels: 63
0.73 0.16 0.11
Matches are distributed among these distances:
122 2 0.00
123 83 0.20
124 4 0.01
126 2 0.00
127 1 0.00
128 1 0.00
132 1 0.00
133 2 0.00
134 104 0.25
135 2 0.00
136 80 0.19
137 128 0.31
138 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (134 bp):
AGCTCACAACTCCGACACAGCTAGCGAACCTACGCTCCCAGTTGATGTCATAAAGGTTTGTCGGT
TTAAGATCGCAACCTCCAAAGTACTGCAGACCTACACTACCAACTGACATTACAAGAGCTTGGAA
GTTA
Found at i:48346411 original size:260 final size:257
Alignment explanation
Indices: 48346022--48346498 Score: 598
Period size: 260 Copynumber: 1.8 Consensus size: 257
48346012 CTCCCAGTTG
** * * *
48346022 ATGTCATAAAGGTTTGTCGGTTTAAGATCACAACCTCCAAATCTAGCAGACCTGTACTCCCAGCT
1 ATGTCATAAAGGTTTGTCAATTTAAGATCACAACCTCCAAAGCTAGCAGACCTGCACTCCCAACT
** * * * * * *
48346087 GACATTACAAGAGCTCATGGAGTTTAGCTCTCAGATTTGACATAGCTAGCGAACCTAGGCTCCCA
66 GACATTACAAGAGCTCATAAAGTTAAGCTCGCAGATCTAACACAGCTAGCGAACCTACGCTCCCA
* ** ** **
48346152 ATTGATGTTATAAAGGTTTATC-GATTTAAGATCGTAACCTCCAAAGCAACTACCGGACCTACGC
131 ACTGATGCCATAAAGGTTTATCAG-TTTAAGATCACAACCTCCAAAGCAACTAAAGGACCTACGC
*
48346216 TCCCAGCTGACATTATAAGAGCTCGCAGCTCCGGCACAACCAGTGGACCTACACTCCTAAATT
195 TCCCAACTGACATTATAAGAGCTCGCAGCTCCGGCACAACCAGTGGACCTACACTCCTAAATT
* * ** *
48346279 ATGTCATAAAGGTTTGTCAATTTAAGATCGCAATCTCCAAAGCAGCTAGCAGACCTGCGGTCTCA
1 ATGTCATAAAGGTTTGTCAATTTAAGATCACAACCTCC-AA--AGCTAGCAGACCTGCACTCCCA
* * * *
48346344 ATTGACATTACAAGAGCTCGTAAAGTTAAGCTCGCAGCTCTAACACAGTTAGC-AGACCTACGCT
63 ACTGACATTACAAGAGCTCATAAAGTTAAGCTCGCAGATCTAACACAGCTAGCGA-ACCTACGCT
* *
48346408 CCCAACTGATGCCATAAAGGTTTGTCAGTTTAAGATCACAACCTCCAAAGCAACTAAAGGATCTA
127 CCCAACTGATGCCATAAAGGTTTATCAGTTTAAGATCACAACCTCCAAAGCAACTAAAGGACCTA
*
48346473 CGCTCCCAATTGACATTATAAGAGCT
192 CGCTCCCAACTGACATTATAAGAGCT
48346499 TGGGGAGTTA
Statistics
Matches: 182, Mismatches: 33, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
257 34 0.19
258 2 0.01
259 1 0.01
260 144 0.79
261 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (257 bp):
ATGTCATAAAGGTTTGTCAATTTAAGATCACAACCTCCAAAGCTAGCAGACCTGCACTCCCAACT
GACATTACAAGAGCTCATAAAGTTAAGCTCGCAGATCTAACACAGCTAGCGAACCTACGCTCCCA
ACTGATGCCATAAAGGTTTATCAGTTTAAGATCACAACCTCCAAAGCAACTAAAGGACCTACGCT
CCCAACTGACATTATAAGAGCTCGCAGCTCCGGCACAACCAGTGGACCTACACTCCTAAATT
Found at i:48348758 original size:81 final size:81
Alignment explanation
Indices: 48348659--48348866 Score: 346
Period size: 81 Copynumber: 2.6 Consensus size: 81
48348649 TGCATTAAGG
*
48348659 CCTTGTAGTGGGGGCTCGTCAAAAGGGCTCGTAAGAGAAGTTCACGACCCGATTGGGCCCTACCA
1 CCTTGTAGTGGGGGCTCGTCAAAAGGGCTCGCAAGAGAAGTTCACGACCCGATTGGGCCCTACCA
*
48348724 ATTGATTGTGAATAGA
66 ATTGATTGTGAACAGA
48348740 CCTTGTAGTGGGGGCTCGTCAAAAGGGCTCGCAAGAGAAGTTCACGACCCGATTGGGCCCTACCA
1 CCTTGTAGTGGGGGCTCGTCAAAAGGGCTCGCAAGAGAAGTTCACGACCCGATTGGGCCCTACCA
*
48348805 ATTGATTGTGTACAGA
66 ATTGATTGTGAACAGA
* * *
48348821 CCTTGTAGTGGGGGTTCG-CTAGAAGGGCTCGCAAGGGAAGTTCACG
1 CCTTGTAGTGGGGGCTCGTC-AAAAGGGCTCGCAAGAGAAGTTCACG
48348867 GTCCTAGTGC
Statistics
Matches: 120, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
80 1 0.01
81 119 0.99
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.23
Consensus pattern (81 bp):
CCTTGTAGTGGGGGCTCGTCAAAAGGGCTCGCAAGAGAAGTTCACGACCCGATTGGGCCCTACCA
ATTGATTGTGAACAGA
Found at i:48349315 original size:13 final size:13
Alignment explanation
Indices: 48349297--48349333 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
48349287 ATAGGTATTC
48349297 ATTTATTTATAAT
1 ATTTATTTATAAT
48349310 ATTTATTTATAAT
1 ATTTATTTATAAT
*
48349323 TTTATATTTAT
1 ATT-TATTTAT
48349334 TTTTTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTTATTTATAAT
Found at i:48349326 original size:21 final size:21
Alignment explanation
Indices: 48349302--48349366 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
48349292 TATTCATTTA
48349302 TTTATAATATTTATTTATAAT
1 TTTATAATATTTATTTATAAT
*
48349323 TTTATATTTATTT-TTTAT--T
1 TTTATA-ATATTTATTTATAAT
48349342 TTTA-AATACTTTATTT-TAAAT
1 TTTATAATA-TTTATTTAT-AAT
48349363 TTTA
1 TTTA
48349367 GATTTTTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
17 2 0.06
18 5 0.14
19 8 0.22
21 16 0.44
22 5 0.14
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTATAATATTTATTTATAAT
Found at i:48349342 original size:18 final size:19
Alignment explanation
Indices: 48349298--48349358 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 19
48349288 TAGGTATTCA
48349298 TTTATTTATAATATTTATTT
1 TTTATTT-TAATATTTATTT
* *
48349318 ATAATTTT-ATATTTATTT
1 TTTATTTTAATATTTATTT
48349336 TTTATTTTTAAATACTTTATTT
1 TTTA-TTTT-AATA-TTTATTT
48349358 T
1 T
48349359 AAATTTTAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 12 0.36
19 5 0.15
20 5 0.15
21 3 0.09
22 8 0.24
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTATTTTAATATTTATTT
Found at i:48350052 original size:23 final size:24
Alignment explanation
Indices: 48350026--48350070 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
48350016 AATGAGAATA
*
48350026 ATTAATATCT-TAAGTTTTTTTAC
1 ATTAATATCTATAAGTATTTTTAC
* *
48350049 ATTATTATTTATAAGTATTTTT
1 ATTAATATCTATAAGTATTTTT
48350071 GTTACATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 8 0.44
24 10 0.56
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (24 bp):
ATTAATATCTATAAGTATTTTTAC
Found at i:48365873 original size:19 final size:19
Alignment explanation
Indices: 48365849--48365902 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
48365839 AATCTTCAAG
*
48365849 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
48365868 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48365887 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
48365903 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:48365928 original size:22 final size:22
Alignment explanation
Indices: 48365862--48365925 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 22
48365852 ATGCAATATT
48365862 AGATATGATATGCAATCTT---
1 AGATATGATATGCAATCTTAGA
48365881 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
48365903 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
48365926 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 19 0.49
22 8 0.21
23 12 0.31
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:48366438 original size:2 final size:2
Alignment explanation
Indices: 48366431--48366461 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
48366421 CAAATTTTGT
48366431 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 T
48366462 GCATGCATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48366557 original size:37 final size:37
Alignment explanation
Indices: 48366481--48366557 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 37
48366471 CATACATACG
*
48366481 TTTTATAATATATACATATACGTACACATTTTTTAATT
1 TTTTATAATATATACATATACG-ACACATTTTATAATT
* *
48366519 TTTTATAA-ATATATATATAC-ACATACTTTTATATATT
1 TTTTATAATATATACATATACGACACA-TTTTATA-ATT
48366556 TT
1 TT
48366558 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
35 4 0.12
36 6 0.18
37 16 0.47
38 8 0.24
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.52
Consensus pattern (37 bp):
TTTTATAATATATACATATACGACACATTTTATAATT
Found at i:48366659 original size:27 final size:26
Alignment explanation
Indices: 48366629--48366698 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
48366619 TATATTTTTT
48366629 TATTTTTTTATAATTCACATACATATA
1 TATTTTTTTATAATT-ACATACATATA
* * *
48366656 TATTTTTCTTAAAAGTACATATATATA
1 TATTTTT-TTATAATTACATACATATA
48366683 T-TTATATTTTATAATT
1 TATT-T-TTTTATAATT
48366699 TTTATCTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.06
27 25 0.71
28 8 0.23
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.54
Consensus pattern (26 bp):
TATTTTTTTATAATTACATACATATA
Found at i:48366874 original size:3 final size:3
Alignment explanation
Indices: 48366866--48366952 Score: 174
Period size: 3 Copynumber: 29.0 Consensus size: 3
48366856 TTATCTTTTC
48366866 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
48366914 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
48366953 GTTCTTGATC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:48372536 original size:22 final size:22
Alignment explanation
Indices: 48372494--48372539 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
48372484 AAAATTATGA
* *
48372494 AATTATATTTTATTATTTATAT
1 AATTATATTTAATTATATATAT
48372516 AATTATATTTAA-TATA-ATAT
1 AATTATATTTAATTATATATAT
48372536 AATT
1 AATT
48372540 TAAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 3 0.14
22 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTATATTTAATTATATATAT
Found at i:48375740 original size:3 final size:3
Alignment explanation
Indices: 48375732--48375768 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
48375722 TGAGTGAGAG
48375732 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
48375769 GAGATCAGAG
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:48385521 original size:19 final size:19
Alignment explanation
Indices: 48385497--48385609 Score: 181
Period size: 19 Copynumber: 5.8 Consensus size: 19
48385487 AATTTTTGAG
48385497 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
48385516 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
48385535 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48385554 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
**
48385575 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48385594 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
48385610 ATATATGATT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
19 67 0.78
21 19 0.22
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:48385564 original size:59 final size:59
Alignment explanation
Indices: 48385498--48385609 Score: 197
Period size: 59 Copynumber: 1.9 Consensus size: 59
48385488 ATTTTTGAGG
*
48385498 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATACAATCCTAGATATGATATGCAATCTTAGATATGAT
* *
48385557 ATATGCAATCTTAGATATGATATATAATCTTAGATATGATATGCAATCTTAGA
1 ATATGCAATCTTAGATATGATATACAATCCTAGATATGATATGCAATCTTAGA
48385610 ATATATGATT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (59 bp):
ATATGCAATCTTAGATATGATATACAATCCTAGATATGATATGCAATCTTAGATATGAT
Found at i:48386222 original size:25 final size:25
Alignment explanation
Indices: 48386171--48386222 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
48386161 AATTTTGTTA
**
48386171 ATGTAATTATTATTATTATTTTCAT
1 ATGTAATTATTATTATTATTAGCAT
48386196 ATGTAATTATTATTATT-TTAGCTAT
1 ATGTAATTATTATTATTATTAGC-AT
48386221 AT
1 AT
48386223 ATATATATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 3 0.12
25 21 0.88
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.58
Consensus pattern (25 bp):
ATGTAATTATTATTATTATTAGCAT
Found at i:48386343 original size:28 final size:28
Alignment explanation
Indices: 48386286--48386341 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 28
48386276 TTTTCGCATA
48386286 TTTATTTTTTTAATATGAGATAATTATT
1 TTTATTTTTTTAATATGAGATAATTATT
48386314 TTTATTTTATTT-ATAT---ATAATTATT
1 TTTATTTT-TTTAATATGAGATAATTATT
48386339 TTT
1 TTT
48386342 TTATTAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 12 0.44
28 12 0.44
29 3 0.11
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (28 bp):
TTTATTTTTTTAATATGAGATAATTATT
Found at i:48386913 original size:19 final size:20
Alignment explanation
Indices: 48386874--48386913 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
48386864 NNCTAGGCCT
* *
48386874 TTGTAATATTTATTATTGCA
1 TTGTAATATTTAATATAGCA
48386894 TTGT-ATATTTAATATAGCA
1 TTGTAATATTTAATATAGCA
48386913 T
1 T
48386914 CACATCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.53
Consensus pattern (20 bp):
TTGTAATATTTAATATAGCA
Found at i:48387273 original size:98 final size:98
Alignment explanation
Indices: 48387154--48387348 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
48387144 CTAAAAACAA
* * *
48387154 TAAAGGAAATATTCTGAGTTTGGGATTTTAAAGGAATTGTGCCATAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCATAACGTATTGGGTGTGATTTC
48387219 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
48387252 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCATAACGTATTGGGTGTGATTTC
48387317 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
48387349 ATTTTATTGT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.29, C:0.09, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCATAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:48389885 original size:13 final size:13
Alignment explanation
Indices: 48389867--48389891 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48389857 ATGAGCAGCA
48389867 AAAAATGATAGAC
1 AAAAATGATAGAC
48389880 AAAAATGATAGA
1 AAAAATGATAGA
48389892 ATCTCAAGGG
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:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AAAAATGATAGAC
Found at i:48392208 original size:18 final size:19
Alignment explanation
Indices: 48392182--48392218 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
48392172 AAAAAAAACA
48392182 AAAACAAAAACA-AAAAATG
1 AAAACAAAAA-AGAAAAATG
48392201 AAAA-AAAAAAGAAAAATG
1 AAAACAAAAAAGAAAAATG
48392219 GAGAGGCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.06
18 12 0.71
19 4 0.24
ACGTcount: A:0.81, C:0.05, G:0.08, T:0.05
Consensus pattern (19 bp):
AAAACAAAAAAGAAAAATG
Found at i:48393731 original size:133 final size:133
Alignment explanation
Indices: 48393504--48393777 Score: 485
Period size: 133 Copynumber: 2.1 Consensus size: 133
48393494 GTGGAGCATG
* * *
48393504 TTAAAGATAGCAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCGAAGATGTTGGGTTTTTC
1 TTAAAGATAGCAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCGAAGATGGTGGATTTTAC
*
48393569 CTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
66 CTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAGCAGTGGAAT
48393634 AGA
131 AGA
*
48393637 TTAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGATGGTGGATTTTAC
1 TTAAAGATAGCAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCGAAGATGGTGGATTTTAC
*
48393702 CTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAATAATTCTACTTTCCTGGGCAGCAGTGGAAT
66 CTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAGCAGTGGAAT
48393767 AGA
131 AGA
*
48393770 TTAGAGAT
1 TTAAAGAT
48393778 GGCGGATTTT
Statistics
Matches: 134, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
133 134 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (133 bp):
TTAAAGATAGCAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCGAAGATGGTGGATTTTAC
CTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAGCAGTGGAAT
AGA
Found at i:48393851 original size:43 final size:43
Alignment explanation
Indices: 48393716--48393863 Score: 131
Period size: 43 Copynumber: 3.4 Consensus size: 43
48393706 CTGTGGTTAT
* * *
48393716 AGTGGAGTACATTGAAGCCAATAATTCTACTTTCCTGGGCAGC
1 AGTGGAATACATTGAAGCCAATAATTCTACTTCCCTGGGCAAC
* ** * **
48393759 AGTGGAATAGATTAGAGATGGCGGAT--TT-TACCTCCCTGTGGTTAC
1 AGTGGAATACATT-GA-A--GCCAATAATTCTACTTCCCTG-GGCAAC
*
48393804 AGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAAC
1 AGTGGAATACATTGAAGCCAATAATTCTACTTCCCTGGGCAAC
*
48393847 AGTGGAATAGATTGAAG
1 AGTGGAATACATTGAAG
48393864 ATTTCAGATC
Statistics
Matches: 79, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
41 4 0.05
43 33 0.42
44 21 0.27
45 17 0.22
47 4 0.05
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (43 bp):
AGTGGAATACATTGAAGCCAATAATTCTACTTCCCTGGGCAAC
Found at i:48393882 original size:88 final size:88
Alignment explanation
Indices: 48393702--48394085 Score: 327
Period size: 88 Copynumber: 4.4 Consensus size: 88
48393692 TGGATTTTAC
* *
48393702 CTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAATAATTCTA-CTTTCCTGGGCAGCAGTGGAA
1 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATC-TCCCTGGGCAGCAGTGGAA
* * * *
48393766 TAGATT-AGAGATGGCGGATTTTAC
65 TAGATTGA-AGATGTCAGATCTTAT
*
48393790 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTA-CTTCCCTGGGCAACAGTGGAA
1 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATC-TCCCTGGGCAGCAGTGGAA
*
48393854 TAGATTGAAGATTTCAGATCTTAT
65 TAGATTGAAGATGTCAGATCTTAT
* ** * * * * ** *
48393878 CTCCCT-AGGCAATAGTGGAATAGATTGAAG--ATTTCAGA-TCTTATCTCCCTAAGCAGTAGTG
1 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA-AT-A-ATTC-TATCTCCCTGGGCAGCAGTG
* * * *
48393939 GAGTAGATCGAAGATGGT-GGATTTTAT
62 GAATAGATTGAAGAT-GTCAGATCTTAT
* * * *
48393966 CTCCCTGTGGTTACAGTGGAGTACATTGAAGTCAGTAATCCTATCTCCCTGGTCAGCAGTGGAAT
1 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGCAGCAGTGGAAT
* *
48394031 AGGTTGAAGATTGTAAG-TCTTAT
66 AGATTGAAGA-TGTCAGATCTTAT
** * * *
48394054 CTCCCTGCAGTTGCAGTGGAATAGATTGAAGC
1 CTCCCTGTGGTTACAGTGGAGTACATTGAAGC
48394086 ACTAGCTCCT
Statistics
Matches: 236, Mismatches: 47, Indels: 26
0.76 0.15 0.08
Matches are distributed among these distances:
85 1 0.00
86 1 0.00
87 21 0.09
88 186 0.79
89 25 0.11
90 1 0.00
91 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (88 bp):
CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGCAGCAGTGGAAT
AGATTGAAGATGTCAGATCTTAT
Found at i:48393895 original size:44 final size:44
Alignment explanation
Indices: 48393835--48393953 Score: 184
Period size: 44 Copynumber: 2.7 Consensus size: 44
48393825 TAATTCTACT
* *
48393835 TCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATC
1 TCCCTAGGCAATAGTGGAATAGATTGAAGATTTCAGATCTTATC
48393879 TCCCTAGGCAATAGTGGAATAGATTGAAGATTTCAGATCTTATC
1 TCCCTAGGCAATAGTGGAATAGATTGAAGATTTCAGATCTTATC
* * * *
48393923 TCCCTAAGCAGTAGTGGAGTAGATCGAAGAT
1 TCCCTAGGCAATAGTGGAATAGATTGAAGAT
48393954 GGTGGATTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 69 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (44 bp):
TCCCTAGGCAATAGTGGAATAGATTGAAGATTTCAGATCTTATC
Found at i:48394055 original size:44 final size:45
Alignment explanation
Indices: 48393835--48394084 Score: 180
Period size: 44 Copynumber: 5.6 Consensus size: 45
48393825 TAATTCTACT
* * *
48393835 TCCCTGGGCAACAGTGGAATAGATTGAAGATT-TCAGATCTTATC
1 TCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTAAGATCTTATC
** *
48393879 TCCCTAGG-CAATAGTGGAATAGATTGAAGATT-TCAGATCTTATC
1 TCCCT-GGTCAGCAGTGGAATAGATTGAAGATTGTAAGATCTTATC
* * * * * * *
48393923 TCCCTAAG-CAGTAGTGGAGTAGATCGAAGATGGT-GGATTTTATC
1 TCCCT-GGTCAGCAGTGGAATAGATTGAAGATTGTAAGATCTTATC
* * * * *
48393967 TCCCTGTGGTTA-CAGTGGAGTACATTGAAG-TCAGT-A-ATCCTATC
1 TCCC--TGGTCAGCAGTGGAATAGATTGAAGAT-TGTAAGATCTTATC
*
48394011 TCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATC
1 TCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTAAGATCTTATC
*
48394055 TCCCTGCAGT-TGCAGTGGAATAGATTGAAG
1 TCCCTG--GTCAGCAGTGGAATAGATTGAAG
48394085 CACTAGCTCC
Statistics
Matches: 169, Mismatches: 25, Indels: 23
0.78 0.12 0.11
Matches are distributed among these distances:
42 5 0.03
43 17 0.10
44 104 0.62
45 39 0.23
46 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (45 bp):
TCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTAAGATCTTATC
Found at i:48394312 original size:19 final size:19
Alignment explanation
Indices: 48394288--48394419 Score: 210
Period size: 19 Copynumber: 6.8 Consensus size: 19
48394278 AATTTTTGAG
48394288 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
48394307 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
48394326 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48394345 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
48394366 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
** *
48394385 GATATATAATCTTAGATAC
1 GATATGCAATCTTAGATAT
48394404 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
48394420 ATATATGATT
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
19 85 0.82
21 19 0.18
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:48394355 original size:59 final size:57
Alignment explanation
Indices: 48394288--48394426 Score: 210
Period size: 59 Copynumber: 2.4 Consensus size: 57
48394278 AATTTTTGAG
* *
48394288 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAC
* *
48394345 GATATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATATAATCTTAGATAC
1 G--ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAC
48394404 GATATGCAATCTTAGA-AT-ATATG
1 GATATGCAATCTTAGATATGATATG
48394427 ATTTTGTAAT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 16 0.21
59 53 0.70
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (57 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAC
Found at i:48395028 original size:25 final size:25
Alignment explanation
Indices: 48394977--48395028 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
48394967 AATTTTGTTA
**
48394977 ATGTAATTATTATTATTATTTTCAT
1 ATGTAATTATTATTATTATTAGCAT
48395002 ATGTAATTATTATTATT-TTAGCTAT
1 ATGTAATTATTATTATTATTAGC-AT
48395027 AT
1 AT
48395029 ATACATGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 3 0.12
25 21 0.88
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.58
Consensus pattern (25 bp):
ATGTAATTATTATTATTATTAGCAT
Found at i:48395634 original size:19 final size:20
Alignment explanation
Indices: 48395595--48395634 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
48395585 TTCTAGGCCT
* *
48395595 TTGTAATATTTATTATTGCA
1 TTGTAATATTTAATATAGCA
48395615 TTGT-ATATTTAATATAGCA
1 TTGTAATATTTAATATAGCA
48395634 T
1 T
48395635 CACATCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.53
Consensus pattern (20 bp):
TTGTAATATTTAATATAGCA
Found at i:48395995 original size:98 final size:98
Alignment explanation
Indices: 48395875--48396066 Score: 357
Period size: 98 Copynumber: 2.0 Consensus size: 98
48395865 CTAAAAACAA
* *
48395875 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
48395940 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
48395973 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
48396038 TTAAATCTTGGATAAGTGGATGTTCTTTT
66 TTAAATCTTGGATAAGTGGATGTTCTTTT
48396067 GAAATTTTAT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:48402885 original size:26 final size:29
Alignment explanation
Indices: 48402834--48402889 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
48402824 TTTCCTTTAT
48402834 TCATACATATAACACAATATCACATATCA
1 TCATACATATAACACAATATCACATATCA
48402863 TCATATCAT-TAACA-AAT-TC-CATATCA
1 TCATA-CATATAACACAATATCACATATCA
48402889 T
1 T
48402890 TCCATAATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 8 0.31
27 2 0.08
28 3 0.12
29 10 0.38
30 3 0.12
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (29 bp):
TCATACATATAACACAATATCACATATCA
Found at i:48403333 original size:12 final size:12
Alignment explanation
Indices: 48403316--48403345 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
48403306 ATTATTATAC
48403316 TTTATTTAATAA
1 TTTATTTAATAA
48403328 TTTATTTAATAA
1 TTTATTTAATAA
*
48403340 TATATT
1 TTTATT
48403346 AATTATGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTATTTAATAA
Found at i:48406598 original size:11 final size:11
Alignment explanation
Indices: 48406582--48406606 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48406572 AAAAAATTTT
48406582 TAATAAAATAA
1 TAATAAAATAA
48406593 TAATAAAATAA
1 TAATAAAATAA
48406604 TAA
1 TAA
48406607 GATCTGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:48410213 original size:13 final size:14
Alignment explanation
Indices: 48410192--48410228 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
48410182 TCCAAGTCAG
48410192 ATAAAATAATTAAA
1 ATAAAATAATTAAA
*
48410206 AT-AAATAACTAAA
1 ATAAAATAATTAAA
48410219 ATAAAATAAT
1 ATAAAATAAT
48410229 AAATCAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAAAATAATTAAA
Found at i:48415842 original size:22 final size:22
Alignment explanation
Indices: 48415817--48415921 Score: 124
Period size: 22 Copynumber: 4.8 Consensus size: 22
48415807 ATTTGGATAT
*
48415817 TTTTTGAAGGAAATTGAGAGGA
1 TTTTTGAAGGAAATTGAGAGAA
* *
48415839 TTTTAGAAGGAATTTGAGAGAA
1 TTTTTGAAGGAAATTGAGAGAA
*
48415861 -TTTTGAAAGGAATTTGAGAGAA
1 TTTTTG-AAGGAAATTGAGAGAA
*
48415883 TTTTTTAACGG-AATTGAGAGAA
1 TTTTTGAA-GGAAATTGAGAGAA
*
48415905 TTTTTGAAGGATATTGA
1 TTTTTGAAGGAAATTGA
48415922 TATTGAATTT
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.08
22 59 0.83
23 6 0.08
ACGTcount: A:0.37, C:0.01, G:0.27, T:0.35
Consensus pattern (22 bp):
TTTTTGAAGGAAATTGAGAGAA
Found at i:48416660 original size:118 final size:116
Alignment explanation
Indices: 48416378--48416674 Score: 417
Period size: 114 Copynumber: 2.6 Consensus size: 116
48416368 TTCAAGGTAC
* *
48416378 ATTTTTATTTTTTAATTATTATTT-TTTGTTT-GTTTGTAATCCTTATTATTTGTCCTATTTTGT
1 ATTTTTATTTTGTAATTATTATTTATTTGTTTATTTTGTAATCCTTATTATTTGTCCTATTTTGT
* * * *
48416441 GGTTTTGGAAGAAGAGGAGGTAGCATATTAAGGTTTAGAGATGCATTTTTA
66 GGGTTTGGAAGAAGAGGAGGCAGCATATTAAGGTTTAAAGATACATTTTTA
* * *
48416492 ATTTTTA--TTGTAATTATTATTTATTTATTTATTTTATAATCCTTATTATTTATCCTATTTTGT
1 ATTTTTATTTTGTAATTATTATTTATTTGTTTATTTTGTAATCCTTATTATTTGTCCTATTTTGT
*
48416555 GGGTTTGGAA-AGAGAGGAGGCAGCAGCTTATTAAGGTTTAAAGGTACATTTTT-
66 GGGTTTGGAAGA-AGAGGAGGCAGCA---TATTAAGGTTTAAAGATACATTTTTA
*
48416608 ATTTTTATTTTGTAATTATTATTTATTTGTTTATTTTGTAATCCTTAGTATTTGTCCTATTTTGT
1 ATTTTTATTTTGTAATTATTATTTATTTGTTTATTTTGTAATCCTTATTATTTGTCCTATTTTGT
48416673 GG
66 GG
48416675 CGTTGTGTTG
Statistics
Matches: 161, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
112 14 0.09
113 7 0.04
114 57 0.35
116 7 0.04
117 22 0.14
118 54 0.34
ACGTcount: A:0.24, C:0.06, G:0.16, T:0.54
Consensus pattern (116 bp):
ATTTTTATTTTGTAATTATTATTTATTTGTTTATTTTGTAATCCTTATTATTTGTCCTATTTTGT
GGGTTTGGAAGAAGAGGAGGCAGCATATTAAGGTTTAAAGATACATTTTTA
Found at i:48418335 original size:2 final size:2
Alignment explanation
Indices: 48418328--48418361 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
48418318 NNNNNNNNTC
48418328 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48418362 TGGTAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48425265 original size:37 final size:37
Alignment explanation
Indices: 48425224--48425294 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
48425214 TTTAAATTTC
48425224 AAGTATATGGTTATTTGATATGTGAATGAAAATGAAT
1 AAGTATATGGTTATTTGATATGTGAATGAAAATGAAT
*
48425261 AAGTATATGGTTATTTGATATGTGTATGAAAATG
1 AAGTATATGGTTATTTGATATGTGAATGAAAATG
48425295 TTCAAAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.39
Consensus pattern (37 bp):
AAGTATATGGTTATTTGATATGTGAATGAAAATGAAT
Found at i:48426483 original size:26 final size:27
Alignment explanation
Indices: 48426426--48426483 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
48426416 TATAAACAGG
* * * *
48426426 TGTTTTGGTTTTAAGTGTATATATGTA
1 TGTTATGGTTTGAAATGTATATATGGA
*
48426453 AGTTATGGTTTGAAATG-ATATATGGA
1 TGTTATGGTTTGAAATGTATATATGGA
48426479 TGTTA
1 TGTTA
48426484 AAATGGTATT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (27 bp):
TGTTATGGTTTGAAATGTATATATGGA
Found at i:48427655 original size:13 final size:13
Alignment explanation
Indices: 48427613--48427656 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
48427603 AACATGTTCA
*
48427613 CATATAGGGTTTG
1 CATATAAGGTTTG
* **
48427626 CACATAAGGTTCA
1 CATATAAGGTTTG
48427639 CATATAAGGTTTG
1 CATATAAGGTTTG
48427652 CATAT
1 CATAT
48427657 TGAATCACAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (13 bp):
CATATAAGGTTTG
Found at i:48428491 original size:40 final size:40
Alignment explanation
Indices: 48428436--48428527 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 40
48428426 TCTCGAGTAG
* * *
48428436 CCCGATTTCGTTGGCCTTATTAAATTACCATCCTGGTTTA
1 CCCGATTTCGATGGCCTTATTAAACTACCATCCCGGTTTA
* *
48428476 CCCGATTTCGATGGCCTTTTTAAACTATCATCCCGGTTTA
1 CCCGATTTCGATGGCCTTATTAAACTACCATCCCGGTTTA
*
48428516 CCCAATTTCGAT
1 CCCGATTTCGAT
48428528 AGCATTACCA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (40 bp):
CCCGATTTCGATGGCCTTATTAAACTACCATCCCGGTTTA
Found at i:48429425 original size:31 final size:30
Alignment explanation
Indices: 48429380--48429446 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
48429370 GATATCAGTC
* *
48429380 ATGCAGTGAACAGTATGTAATATCATTAATCA
1 ATGCAGTGAACAGTA--CAAAATCATTAATCA
48429412 ATGCAGT-AACAGTACAAAATCATTAATCA
1 ATGCAGTGAACAGTACAAAATCATTAATCA
48429441 ATGCAG
1 ATGCAG
48429447 ATGTGTAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 19 0.58
31 7 0.21
32 7 0.21
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (30 bp):
ATGCAGTGAACAGTACAAAATCATTAATCA
Found at i:48431715 original size:13 final size:13
Alignment explanation
Indices: 48431680--48431723 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
48431670 AACATGCTTC
*
48431680 CATATAGGGTTCG
1 CATATAGGGTTTG
*
48431693 CACATAGGGTTTG
1 CATATAGGGTTTG
*
48431706 CATATCGGGTTTG
1 CATATAGGGTTTG
48431719 CATAT
1 CATAT
48431724 TGTATCGCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (13 bp):
CATATAGGGTTTG
Found at i:48436211 original size:23 final size:24
Alignment explanation
Indices: 48436176--48436233 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
48436166 ATGATTTTAA
**
48436176 AAAAT-TTTCATATTTATATAAT-T
1 AAAATATTT-ATATTTTCATAATAT
*
48436199 AAAATATTTATATTTTCATACTAT
1 AAAATATTTATATTTTCATAATAT
48436223 AAAATATTTAT
1 AAAATATTTAT
48436234 TATTAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.50
24 15 0.50
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (24 bp):
AAAATATTTATATTTTCATAATAT
Done.