Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 46 of 126
Found at i:13374426 original size:44 final size:44
Alignment explanation
Indices: 13374378--13374562 Score: 112
Period size: 44 Copynumber: 4.2 Consensus size: 44
13374368 AAAATTATAG
13374378 ATCTTATCTCCCTAAGCAATAGTGGAGAAGATCGAATATGACAA
1 ATCTTATCTCCCTAAGCAATAGTGGAGAAGATCGAATATGACAA
* * *
13374422 ATCTTATCTTTCC-AAG--ATAGTGG-GAAG--CAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAATAGTGGAGAAGATC-GA-ATATG--A-CAA
** * * * ** ** * * * * * *
13374466 GCCTTGTCTCCTTGAGCAGCAGCCGAGAAGGTTGAAAATTATAG
1 ATCTTATCTCCCTAAGCAATAGTGGAGAAGATCGAATATGACAA
13374510 ATCTTATCTCCCTAAGCAATAGTGGAGAAGATCGAATATGACAA
1 ATCTTATCTCCCTAAGCAATAGTGGAGAAGATCGAATATGACAA
13374554 ATCTTATCT
1 ATCTTATCT
13374563 TTCCAAGATA
Statistics
Matches: 94, Mismatches: 35, Indels: 24
0.61 0.23 0.16
Matches are distributed among these distances:
39 1 0.01
40 2 0.02
41 7 0.07
42 7 0.07
43 3 0.03
44 60 0.64
45 4 0.04
46 3 0.03
47 5 0.05
48 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAATAGTGGAGAAGATCGAATATGACAA
Found at i:13374471 original size:132 final size:132
Alignment explanation
Indices: 13374234--13374718 Score: 756
Period size: 132 Copynumber: 3.7 Consensus size: 132
13374224 AACAGATCAG
* * * * * * * *
13374234 TGAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCATATCGAAGACGGCGAATCTTATAT
1 TGAAAATTATAGATCTTATCTCCCTAAGCAATAGTGGAGAAGATCGAAGACGACAAATCTTATCT
13374299 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCTTGAGCAGCAGCCGAGAAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCTTGAGCAGCAGCCGAGAAG
13374364 GT
131 GT
* *
13374366 TGAAAATTATAGATCTTATCTCCCTAAGCAATAGTGGAGAAGATCGAATATGACAAATCTTATCT
1 TGAAAATTATAGATCTTATCTCCCTAAGCAATAGTGGAGAAGATCGAAGACGACAAATCTTATCT
13374431 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCTTGAGCAGCAGCCGAGAAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCTTGAGCAGCAGCCGAGAAG
13374496 GT
131 GT
* *
13374498 TGAAAATTATAGATCTTATCTCCCTAAGCAATAGTGGAGAAGATCGAATATGACAAATCTTATCT
1 TGAAAATTATAGATCTTATCTCCCTAAGCAATAGTGGAGAAGATCGAAGACGACAAATCTTATCT
* * * *
13374563 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTTTCAC-TGAGCAGTAGCGGAGTA
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTC-CTTGAGCAGCAGCCGAGAA
13374627 GGT
130 GGT
* * * * * *
13374630 TGAAGATTGTAGATCTTATCTCCCTATGCAGTAGTGGAGTAGATCGAAGACGACAAATCATATCT
1 TGAAAATTATAGATCTTATCTCCCTAAGCAATAGTGGAGAAGATCGAAGACGACAAATCTTATCT
13374695 TTCCAAGATAGTGGGAAGCAGATT
66 TTCCAAGATAGTGGGAAGCAGATT
13374719 AAAGTCGACA
Statistics
Matches: 330, Mismatches: 22, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
132 329 1.00
133 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (132 bp):
TGAAAATTATAGATCTTATCTCCCTAAGCAATAGTGGAGAAGATCGAAGACGACAAATCTTATCT
TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCTTGAGCAGCAGCCGAGAAG
GT
Found at i:13374973 original size:217 final size:217
Alignment explanation
Indices: 13374711--13375374 Score: 1046
Period size: 217 Copynumber: 3.1 Consensus size: 217
13374701 GATAGTGGGA
* * *
13374711 AGCAGATTAAAGTCGACAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAATCACTGATC
1 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
* *
13374776 TTATC-CTTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGCTGCAGTAGA
66 TTATCTC-TCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGA
*
13374840 GCAAACTAAGTAAGCAAGTCTTATCCTTCTAAAGTTACAGTGAGGCAGACTGAAGATGGCAAATC
130 GCAAACTAAGTAAGCAAGTCTTATCCTTCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATC
* *
13374905 TTATTTTCCTGAAGTTGCAGTGG
195 TTATCTCCCTGAAGTTGCAGTGG
* *
13374928 AGCAGATTAAAGCCGACAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATTACAGATC
1 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
* * * *
13374993 TTATCTCTCTGAATTTACAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCGGTGGA-
66 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
13375057 CAAGACTAAGTAAGCAAGTCTTATCC-TCTTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAAT
131 CAA-ACTAAGTAAGCAAGTCTTATCCTTC-TGAAGTTACAGTGAGGCAGACTGAAGATGGCAAAT
*
13375121 CTTATCTCCCTAAAGTTGCAGTGG
194 CTTATCTCCCTGAAGTTGCAGTGG
* * * *
13375145 AGCAAATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAATCACAGATC
1 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
13375210 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
66 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* * * * *
13375275 CAGACTAAGGAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAGTCT
131 CAAACTAAGTAAGCAAGTCTTATCCTTCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCT
13375340 TATCTCCCTGAAGTTGCAGTGG
196 TATCTCCCTGAAGTTGCAGTGG
* *
13375362 AGTAGATTGAAGC
1 AGCAGATTAAAGC
13375375 ACTAATTCCT
Statistics
Matches: 408, Mismatches: 34, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
216 5 0.01
217 399 0.98
218 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (217 bp):
AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
CAAACTAAGTAAGCAAGTCTTATCCTTCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCT
TATCTCCCTGAAGTTGCAGTGG
Found at i:13375262 original size:40 final size:44
Alignment explanation
Indices: 13374711--13375369 Score: 273
Period size: 44 Copynumber: 15.2 Consensus size: 44
13374701 GATAGTGGGA
* * * *
13374711 AGCAGATTAAAGTCGACA-ATCCTATCTCCCTGAAGTTGTAGTGG
1 AGCAGATTAAAATC-ACAGATCTTATCTCCCTGAAGTTGCAGTAG
* * *
13374755 AGCGGATTAAAATCACTGATCTTATC-CTTCTGAAGTTGCAG-AG
1 AGCAGATTAAAATCACAGATCTTATCTC-CCTGAAGTTGCAGTAG
*** * *
13374798 AGCAGA-TCGCATC-TAG-TCTTATCTCCCTGAAGCTGCAGTAG
1 AGCAGATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTAG
* * * * * *
13374839 AGCAAACTAAGTAAGCA-AG-TCTTATC-CTTCTAAAGTTACAGT-G
1 AGCAGATTAA--AATCACAGATCTTATCTC-CCTGAAGTTGCAGTAG
* * ** * * * *
13374882 AGGCAGACTGAAGATGGCAAATCTTATTTTCCTGAAGTTGCAGTGG
1 A-GCAGA-TTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTAG
** * * *
13374928 AGCAGATTAAAGCCGACA-ATCCTATCTCCCTAAAGTTGCAGTGG
1 AGCAGATTAAAATC-ACAGATCTTATCTCCCTGAAGTTGCAGTAG
* * * * *
13374972 AGCGGATTAAAATTACAGATCTTATCTCTCTGAATTTACAG-AG
1 AGCAGATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTAG
* * * * *
13375015 AGCAGA-TCACATC-TAG-TCTTATCTCCCTGAAGTTGCGGTGG
1 AGCAGATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTAG
* * * *
13375056 A-CAAGACTAAGTAAGCA-AG-TCTTATC-CTCTTGAAGTTACAGT-G
1 AGC-AGATTAA--AATCACAGATCTTATCTC-CCTGAAGTTGCAGTAG
* * ** * * *
13375099 AGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGG
1 A-GCAGA-TTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTAG
* ** * *
13375145 AGCAAATTAAAGCCA-ATAATCCTATCTCCCTGAAGTTGCAGTAG
1 AGCAGATTAAAATCACA-GATCTTATCTCCCTGAAGTTGCAGTAG
* *
13375189 AGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAG-AG
1 AGCAGATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTAG
*** * *
13375232 AGCAGA-TCGCATC-TAG-TCTTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTAG
* *
13375273 AGCAGACTAAGGAAGCA-AG-TCTTATC-CTCCTGAAGTTGCAGT-G
1 AGCAGATTAA--AATCACAGATCTTATCTC-CCTGAAGTTGCAGTAG
* * *
13375316 AGGCAGACTGAAGATGGCA-AG-TCTTATCTCCCTGAAGTTGCAGTGG
1 A-GCAGA-TTAAAAT--CACAGATCTTATCTCCCTGAAGTTGCAGTAG
*
13375362 AGTAGATT
1 AGCAGATT
13375370 GAAGCACTAA
Statistics
Matches: 453, Mismatches: 117, Indels: 90
0.69 0.18 0.14
Matches are distributed among these distances:
40 58 0.13
41 25 0.06
42 16 0.04
43 38 0.08
44 225 0.50
45 83 0.18
46 8 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
AGCAGATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTAG
Found at i:13375269 original size:84 final size:86
Alignment explanation
Indices: 13375167--13375359 Score: 218
Period size: 84 Copynumber: 2.2 Consensus size: 86
13375157 CCAATAATCC
* * *
13375167 TATCTCCCTGAAGTTGCAGTAGAGCGGATTAA-AATCACAGATCTTAT-CTCTCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGAAGCA-AG-TCTTATCCTC-CTGAAGTTGCAG
*
13375230 AGA-GCAGA-TCG-CAT-CTAGTCT
63 AGAGGCAGACT-GACATGCAAGTCT
* *
13375251 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTAGAGCAGACTAA-GAAGCAAGTCTTATCCTCCTGAAGTTGCAGAG
*
13375316 AGGCAGACTGAAGATGGCAAGTCT
65 AGGCAGACTG-ACAT-GCAAGTCT
13375340 TATCTCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGT
13375360 GGAGTAGATT
Statistics
Matches: 93, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
84 49 0.53
85 11 0.12
86 5 0.05
87 2 0.02
89 26 0.28
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (86 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGAAGCAAGTCTTATCCTCCTGAAGTTGCAGAGA
GGCAGACTGACATGCAAGTCT
Found at i:13375601 original size:19 final size:19
Alignment explanation
Indices: 13375577--13375651 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
13375567 AATTTTTGAG
13375577 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
13375596 GATATGCAACCCAAGATAT
1 GATATGCAATCTTAGATAT
*
13375615 CATATATGCAATCTTAGATAT
1 --GATATGCAATCTTAGATAT
13375636 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
13375652 ATATATGATT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 31 0.67
21 15 0.33
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13377063 original size:98 final size:98
Alignment explanation
Indices: 13376948--13377141 Score: 334
Period size: 98 Copynumber: 2.0 Consensus size: 98
13376938 TTTAAAATAA
* **
13376948 TAAAGGAAATATTCCGAGTTTGAGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCATGCCCTAACGTATTGGGTGTGATTTC
13377013 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
13377046 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCATGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCATGCCCTAACGTATTGGGTGTGATTTC
*
13377111 TTAAATCTTGGATGAGTGGATGTTCTTTTAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAA
13377142 TGTTTTGTTG
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCATGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:13379034 original size:46 final size:44
Alignment explanation
Indices: 13378984--13379186 Score: 147
Period size: 46 Copynumber: 4.6 Consensus size: 44
13378974 GATCCAAGGT
** *
13378984 TTTAATCCACTCCACTGCAACTTTAGGAAAAGATAGAATTATCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGAAAAGATA-AATTA-CGGC
13379030 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAAA-TAC-G-
1 TTTAATCTGCTCCACTGCAACTTCA-GGA-A-AAGA-TAAATTACGGC
* * * * *
13379075 ----ATCTGCT-CTCTGCAACTTCA-G-AGAGATAAGATCCAAGGT
1 TTTAATCTGCTCCACTGCAACTTCAGGAAAAGATAA-AT-TACGGC
** *
13379114 TTTAATCCACTCCACTGCAACTTTAGGAAAAGATAGAATTATCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGAAAAGATA-AATTA-CGGC
13379160 TTTAATCTGCTCCACTGCAACTTCAGG
1 TTTAATCTGCTCCACTGCAACTTCAGG
13379187 GCGATCAGAT
Statistics
Matches: 121, Mismatches: 18, Indels: 36
0.69 0.10 0.21
Matches are distributed among these distances:
34 3 0.02
35 4 0.03
36 1 0.01
37 1 0.01
38 2 0.02
40 12 0.10
41 7 0.06
43 5 0.04
44 11 0.09
45 2 0.02
46 57 0.47
47 5 0.04
48 3 0.02
49 6 0.05
50 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGCAACTTCAGGAAAAGATAAATTACGGC
Found at i:13379100 original size:130 final size:130
Alignment explanation
Indices: 13378908--13379187 Score: 551
Period size: 130 Copynumber: 2.1 Consensus size: 130
13378898 CTTTAGCCTA
13378908 CTCCACTGCAACTTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAGAGAGATA
1 CTCCACTGCAAC-TTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAGAGAGATA
13378973 AGATCCAAGGTTTTAATCCACTCCACTGCAACTTTAGGAAAAGATAGAATTATCGGCTTTAATCT
65 AGATCCAAGGTTTTAATCCACTCCACTGCAACTTTAGGAAAAGATAGAATTATCGGCTTTAATCT
13379038 G
130 G
13379039 CTCCACTGCAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAGAGAGATAA
13379104 GATCCAAGGTTTTAATCCACTCCACTGCAACTTTAGGAAAAGATAGAATTATCGGCTTTAATCTG
66 GATCCAAGGTTTTAATCCACTCCACTGCAACTTTAGGAAAAGATAGAATTATCGGCTTTAATCTG
13379169 CTCCACTGCAACTTCAGGG
1 CTCCACTGCAACTTCAGGG
13379188 CGATCAGATT
Statistics
Matches: 149, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
130 137 0.92
131 12 0.08
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (130 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAGAGAGATAA
GATCCAAGGTTTTAATCCACTCCACTGCAACTTTAGGAAAAGATAGAATTATCGGCTTTAATCTG
Found at i:13379401 original size:172 final size:172
Alignment explanation
Indices: 13379042--13379482 Score: 706
Period size: 172 Copynumber: 2.5 Consensus size: 172
13379032 TAATCTGCTC
* *
13379042 CACTGCAACTTCAGG-GAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGGAG-GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGA
* * * *
13379106 TCCAAGGTTTTAATCCACTCCACTGCAACTTTAGGAAAAGATAGAATTATCGGCTTTAATCTGCT
65 TCTAAGGTTTTAATCCGCT-CACTGCAACTTTAGG--AAGATAGAATTACCGGCTTTAATCTACT
* *
13379171 CCACTGCAACTTCAGGGCGATCAGATTTGCCATCTTCCGTCTGCCT
127 CCACTGCAACTTCAGGGCGATAAGATTTGCCATCTTCAGTCTGCCT
*
13379217 CACTGCAACTTCAGGAGGATAAGACTAGATGCGATCTGCTCTCTGCAACATCAGAGAGATAAGAT
1 CACTGCAACTTCAGGAGGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT
* *
13379282 CTAAGGTTTTAATCTGCTCACTGCAACTTTAGCG-AGATAGGATTACCGGCTTTAATCTACTCCA
66 CTAAGGTTTTAATCCGCTCACTGCAACTTTAG-GAAGATAGAATTACCGGCTTTAATCTACTCCA
13379346 CTGCAACTTCAGGGCGATAAGATTTGCCATCTTCAGTCTGCCT
130 CTGCAACTTCAGGGCGATAAGATTTGCCATCTTCAGTCTGCCT
* *
13379389 CACTGCAACTTCAGAAGGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT
1 CACTGCAACTTCAGGAGGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT
13379454 CTAAGGTTTTAATCCGCTCACTGCAACTT
66 CTAAGGTTTTAATCCGCTCACTGCAACTT
13379483 CAGAAGGATA
Statistics
Matches: 249, Mismatches: 15, Indels: 7
0.92 0.06 0.03
Matches are distributed among these distances:
172 158 0.63
174 14 0.06
175 76 0.31
176 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (172 bp):
CACTGCAACTTCAGGAGGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT
CTAAGGTTTTAATCCGCTCACTGCAACTTTAGGAAGATAGAATTACCGGCTTTAATCTACTCCAC
TGCAACTTCAGGGCGATAAGATTTGCCATCTTCAGTCTGCCT
Found at i:13379438 original size:40 final size:40
Alignment explanation
Indices: 13379382--13379535 Score: 170
Period size: 40 Copynumber: 3.8 Consensus size: 40
13379372 CCATCTTCAG
13379382 TCTGCCTCACTGCAACTTCAGA-AGGATAAGACTAGACGCGA
1 TCTG-CTCACTGCAACTTCAGAGA-GATAAGACTAGACGCGA
* * **
13379423 TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTA-AGGTTTTAA
1 TCTGCTCACTGCAACTTCAGAGAGATAAGA-CTAGACG---CGA
*
13379466 TCCGCTCACTGCAACTTCAGA-AGGATAAGACTAGACGCGA
1 TCTGCTCACTGCAACTTCAGAGA-GATAAGACTAGACGCGA
*
13379506 TCTGCTCTCTGCAACTTCAGAGAGATAAGA
1 TCTGCTCACTGCAACTTCAGAGAGATAAGA
13379536 TCTAAGGTTT
Statistics
Matches: 94, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
40 52 0.55
41 9 0.10
42 4 0.04
43 29 0.31
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (40 bp):
TCTGCTCACTGCAACTTCAGAGAGATAAGACTAGACGCGA
Found at i:13379489 original size:83 final size:82
Alignment explanation
Indices: 13379030--13379750 Score: 464
Period size: 83 Copynumber: 8.4 Consensus size: 82
13379020 AATTATCGGC
* * * **
13379030 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCA
1 TTTAATCCGCT-CACTGCAACTTCAGAG-GATAAGACTAGACGCGATCTGCTCTCTGCAACTTCA
*
13379095 GAGAGATAAGATCCAAGGT
64 GAGAGATAAGATCTAAGGT
* * * * *
13379114 TTTAATCCACTCCACTGCAACTT--TAGGAAAAGA-TAGAATTATCGGCTTTAATCTGCTCCACT
1 TTTAATCCGCT-CACTGCAACTTCAGAGGATAAGACTAG----A-C-GC---GATCTGCT-CTCT
* * * * ****
13379176 GCAACTTCAGGGCGATCAGATTTGCCAT
55 GCAACTTCAGAGAGATAAGATCTAAGGT
*** * * *
13379204 CTTCCGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTAGATGCGATCTGCTCTCTGCAACATC
1 -TTTAATCCG-CTCACTGCAACTTCA-GAGGATAAGACTAGACGCGATCTGCTCTCTGCAACTTC
13379269 AGAGAGATAAGATCTAAGGT
63 AGAGAGATAAGATCTAAGGT
* * * * * * * * *
13379289 TTTAATCTGCTCACTGCAACTTTAGCGAGATAGGATTA-CCGGCTTTAATCTACTCCACTGCAAC
1 TTTAATCCGCTCACTGCAACTTCAGAG-GATAAGACTAGAC-GC---GATCTGCT-CTCTGCAAC
* * * ****
13379353 TTCAGGGCGATAAGATTTGCCAT
60 TTCAGAGAGATAAGATCTAAGGT
* * *
13379376 CTTCAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACTAGACGCGATCTGCTCTCTGCAACTTC
1 -TTTAATCCG-CTCACTGCAACTTCAG-AGGATAAGACTAGACGCGATCTGCTCTCTGCAACTTC
13379441 AGAGAGATAAGATCTAAGGT
63 AGAGAGATAAGATCTAAGGT
13379461 TTTAATCCGCTCACTGCAACTTCAGAAGGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAG
1 TTTAATCCGCTCACTGCAACTTCAG-AGGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAG
13379526 AGAGATAAGATCTAAGGT
65 AGAGATAAGATCTAAGGT
* * * * * * * *
13379544 TTTAATCCGCTCACTGCAACTTCAGTGAGATAGGATTA-CCGGCTTTAATTTGCTTCACTACAAC
1 TTTAATCCGCTCACTGCAACTTCAGAG-GATAAGACTAGAC-GC---GATCTGC-TCTCTGCAAC
* * * ****
13379608 TTCGGGGAGATAAGATTTGCCAT
60 TTCAGAGAGATAAGATCTAAGGT
* * * * * * *
13379631 CTTCAGTCTAC-CTCACTGCAATTTCAGGAGGATAAGGCTAGATGCGATATGCTCTCTGTAACTT
1 -TTTAATC--CGCTCACTGCAACTTCA-GAGGATAAGACTAGACGCGATCTGCTCTCTGCAACTT
13379695 CAGAGAGATAAGATCTAAGGT
62 CAGAGAGATAAGATCTAAGGT
*
13379716 TTTAATCCGCTCACTGCAACTTCAGCGAGATAAGA
1 TTTAATCCGCTCACTGCAACTTCAGAG-GATAAGA
13379751 TTACCGACTT
Statistics
Matches: 479, Mismatches: 119, Indels: 79
0.71 0.18 0.12
Matches are distributed among these distances:
80 2 0.00
81 6 0.01
82 8 0.02
83 153 0.32
84 39 0.08
85 69 0.14
86 30 0.06
87 47 0.10
88 12 0.03
89 57 0.12
90 27 0.06
91 16 0.03
92 2 0.00
94 8 0.02
95 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (82 bp):
TTTAATCCGCTCACTGCAACTTCAGAGGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAGA
GAGATAAGATCTAAGGT
Found at i:13379648 original size:172 final size:172
Alignment explanation
Indices: 13379470--13379841 Score: 609
Period size: 172 Copynumber: 2.2 Consensus size: 172
13379460 TTTTAATCCG
* *
13379470 CTCACTGCAACTTCAGAAGGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
1 CTCACTGCAACTTCAGGAGGATAAGACTAGACGCGATATGCTCTCTGCAACTTCAGAGAGATAAG
* * * * *
13379535 ATCTAAGGTTTTAATCCGCTCACTGCAACTTCAGTGAGATAGGATTACCGGCTTTAATTTGCTTC
66 ATCTAAGGTTTTAATCCGCTCACTGCAACTTCAGCGAGATAAGATTACCGACTTTAATCTGCTCC
** *
13379600 ACTACAACTTCGGGGAGATAAGATTTGCCATCTTCAGTCTAC
131 ACTACAACTTAAGGGAGATAAGATTTGCAATCTTCAGTCTAC
* * * *
13379642 CTCACTGCAATTTCAGGAGGATAAGGCTAGATGCGATATGCTCTCTGTAACTTCAGAGAGATAAG
1 CTCACTGCAACTTCAGGAGGATAAGACTAGACGCGATATGCTCTCTGCAACTTCAGAGAGATAAG
13379707 ATCTAAGGTTTTAATCCGCTCACTGCAACTTCAGCGAGATAAGATTACCGACTTTAATCTGCTCC
66 ATCTAAGGTTTTAATCCGCTCACTGCAACTTCAGCGAGATAAGATTACCGACTTTAATCTGCTCC
*
13379772 ACTGCAACTTAAGGGAGATAAGATTTGCAATCTTCAGTCTAC
131 ACTACAACTTAAGGGAGATAAGATTTGCAATCTTCAGTCTAC
13379814 CTCACTGCAACTTCAGGAGGATAAGACT
1 CTCACTGCAACTTCAGGAGGATAAGACT
13379842 TGCCTACTTA
Statistics
Matches: 183, Mismatches: 17, Indels: 0
0.92 0.09 0.00
Matches are distributed among these distances:
172 183 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (172 bp):
CTCACTGCAACTTCAGGAGGATAAGACTAGACGCGATATGCTCTCTGCAACTTCAGAGAGATAAG
ATCTAAGGTTTTAATCCGCTCACTGCAACTTCAGCGAGATAAGATTACCGACTTTAATCTGCTCC
ACTACAACTTAAGGGAGATAAGATTTGCAATCTTCAGTCTAC
Found at i:13379750 original size:255 final size:255
Alignment explanation
Indices: 13379215--13379750 Score: 885
Period size: 255 Copynumber: 2.1 Consensus size: 255
13379205 TTCCGTCTGC
*
13379215 CTCACTGCAACTTCAGGAGGATAAGACTAGATGCGATCTGCTCTCTGCAACATCAGAGAGATAAG
1 CTCACTGCAACTTCAGGAGGATAAGACTAGACGCGATCTGCTCTCTGCAACATCAGAGAGATAAG
* *
13379280 ATCTAAGGTTTTAATCTGCTCACTGCAACTTTAGCGAGATAGGATTACCGGCTTTAATCTACTCC
66 ATCTAAGGTTTTAATCCGCTCACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTACTCC
* * *
13379345 ACTGCAACTTCAGGGCGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGAAGGATA
131 ACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCAGAAGGATA
*
13379410 AGACTAGACGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCG
196 AGACTAGACGCGATATGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCG
* *
13379470 CTCACTGCAACTTCAGAAGGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
1 CTCACTGCAACTTCAGGAGGATAAGACTAGACGCGATCTGCTCTCTGCAACATCAGAGAGATAAG
* * * *
13379535 ATCTAAGGTTTTAATCCGCTCACTGCAACTTCAGTGAGATAGGATTACCGGCTTTAATTTGCTTC
66 ATCTAAGGTTTTAATCCGCTCACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTACTCC
* * *
13379600 ACTACAACTTCGGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAATTTCAGGAGGATA
131 ACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCAGAAGGATA
* * *
13379665 AGGCTAGATGCGATATGCTCTCTGTAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCG
196 AGACTAGACGCGATATGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCG
13379725 CTCACTGCAACTTCAGCGA-GATAAGA
1 CTCACTGCAACTTCAG-GAGGATAAGA
13379751 TTACCGACTT
Statistics
Matches: 260, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
255 259 1.00
256 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (255 bp):
CTCACTGCAACTTCAGGAGGATAAGACTAGACGCGATCTGCTCTCTGCAACATCAGAGAGATAAG
ATCTAAGGTTTTAATCCGCTCACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTACTCC
ACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCAGAAGGATA
AGACTAGACGCGATATGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCG
Found at i:13379840 original size:427 final size:429
Alignment explanation
Indices: 13379030--13379841 Score: 1263
Period size: 427 Copynumber: 1.9 Consensus size: 429
13379020 AATTATCGGC
* * *
13379030 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCA
1 TTTAATCCGCTCCACTGCAACTTCAGAGAGATAAGACTAAACACGATCTGCTCTCTGCAACTTCA
* *
13379095 GAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTTAGGAAAAGATAGAATTATCGGC
66 GAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGG--AAGATAGAATTACCGGC
* * * * *
13379160 TTTAATCTGCTCCACTGCAACTTCAGGGCGATCAGATTTGCCATCTTCCGTCTGCCTCACTGCAA
129 TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAA
*
13379225 CTTCAGGAGGATAAGACTAGATGCGATCTGCTCTCTGCAACATCAGAGAGATAAGATCTAAGGTT
194 CTTCAGGAGGATAAGACTAGATGCGATATGCTCTCTGCAACATCAGAGAGATAAGATCTAAGGTT
* * * *
13379290 TTAATCTGCTCACTGCAACTTTAGCGAGATAGGATTACCGGCTTTAATCTACTCCACTGCAACTT
259 TTAATCCGCTCACTGCAACTTCAGCGAGATAAGATTACCGACTTTAATCTACTCCACTGCAACTT
* * * *
13379355 CAGGGCGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACTAGACG
324 AAGGGAGATAAGATTTGCAATCTTCAGTCTACCTCACTGCAACTTCAGAAGGATAAGACTAGACG
13379420 CGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGT
389 CGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGT
* *
13379461 TTTAATCCGCT-CACTGCAACTTCAGA-AGGATAAGACTAGACGCGATCTGCTCTCTGCAACTTC
1 TTTAATCCGCTCCACTGCAACTTCAGAGA-GATAAGACTAAACACGATCTGCTCTCTGCAACTTC
* * *
13379524 AGAGAGATAAGATCTAAGGTTTTAATCCGCT-CACTGCAACTTCAGTG-AGATAGGATTACCGGC
65 AGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAG-GAAGATAGAATTACCGGC
* * *
13379587 TTTAATTTGCTTCACTACAACTTCGGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAA
129 TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAA
* * * *
13379652 TTTCAGGAGGATAAGGCTAGATGCGATATGCTCTCTGTAACTTCAGAGAGATAAGATCTAAGGTT
194 CTTCAGGAGGATAAGACTAGATGCGATATGCTCTCTGCAACATCAGAGAGATAAGATCTAAGGTT
*
13379717 TTAATCCGCTCACTGCAACTTCAGCGAGATAAGATTACCGACTTTAATCTGCTCCACTGCAACTT
259 TTAATCCGCTCACTGCAACTTCAGCGAGATAAGATTACCGACTTTAATCTACTCCACTGCAACTT
*
13379782 AAGGGAGATAAGATTTGCAATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACT
324 AAGGGAGATAAGATTTGCAATCTTCAGTCTACCTCACTGCAACTTCAGAAGGATAAGACT
13379842 TGCCTACTTA
Statistics
Matches: 346, Mismatches: 33, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
427 246 0.71
429 14 0.04
430 76 0.22
431 10 0.03
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (429 bp):
TTTAATCCGCTCCACTGCAACTTCAGAGAGATAAGACTAAACACGATCTGCTCTCTGCAACTTCA
GAGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGAATTACCGGCTT
TAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACT
TCAGGAGGATAAGACTAGATGCGATATGCTCTCTGCAACATCAGAGAGATAAGATCTAAGGTTTT
AATCCGCTCACTGCAACTTCAGCGAGATAAGATTACCGACTTTAATCTACTCCACTGCAACTTAA
GGGAGATAAGATTTGCAATCTTCAGTCTACCTCACTGCAACTTCAGAAGGATAAGACTAGACGCG
ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGT
Found at i:13379871 original size:44 final size:43
Alignment explanation
Indices: 13379727--13379877 Score: 130
Period size: 44 Copynumber: 3.4 Consensus size: 43
13379717 TTAATCCGCT
* * *
13379727 CACTGCAACTTCAGCGA-GATAAGATTACCGACTTTAATCTGCTC
1 CACTGCAACTTCAG-GAGGATAAGATTGCCAAC-TTAGTCTGCTC
* *
13379771 CACTGCAACTTAAGG-GAGATAAGATTTG-CAATCTTCAGTCTAC-C
1 CACTGCAACTTCAGGAG-GATAAGA-TTGCCAA-CTT-AGTCTGCTC
*
13379815 TCACTGCAACTTCAGGAGGATAAGACTTGCCTACTTAGTCTGCTC
1 -CACTGCAACTTCAGGAGGATAAGA-TTGCCAACTTAGTCTGCTC
*
13379860 CACTACAACTTCAAGGAG
1 CACTGCAACTTC-AGGAG
13379878 ATACGATCTG
Statistics
Matches: 87, Mismatches: 10, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
43 1 0.01
44 42 0.48
45 41 0.47
46 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
CACTGCAACTTCAGGAGGATAAGATTGCCAACTTAGTCTGCTC
Found at i:13379877 original size:45 final size:47
Alignment explanation
Indices: 13379764--13379878 Score: 127
Period size: 45 Copynumber: 2.6 Consensus size: 47
13379754 CCGACTTTAA
*
13379764 TCTGCTCCACTGCAACTT-AAGG-GAGATAAGATTTGCAATCTTCAG
1 TCTGCTCCACTGCAACTTCAAGGAGAGATAAGACTTGCAATCTTCAG
* *
13379809 TCTAC-CTCACTGCAACTTC-AGGAG-GATAAGACTTGC-CTACTT-AG
1 TCTGCTC-CACTGCAACTTCAAGGAGAGATAAGACTTGCAAT-CTTCAG
*
13379853 TCTGCTCCACTACAACTTCAAGGAGA
1 TCTGCTCCACTGCAACTTCAAGGAGA
13379879 TACGATCTGT
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
44 19 0.33
45 38 0.66
46 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (47 bp):
TCTGCTCCACTGCAACTTCAAGGAGAGATAAGACTTGCAATCTTCAG
Found at i:13379894 original size:89 final size:89
Alignment explanation
Indices: 13379159--13379896 Score: 273
Period size: 83 Copynumber: 8.6 Consensus size: 89
13379149 GAATTATCGG
* * * * * * * *
13379159 CTTTAATCTGCTCCACTGCAACTTCAGGGCGATCAGATTTGCCATCTTCCGTCTGCCTCACTGCA
1 CTTTAATCTGCTCCACTACAACTTAAGGGAGATAAGATCTGCAATCTTCAGTCTACCTCACTGCA
*
13379224 ACTTCAG-GAGGATAAGACTA--GA
66 ACTTCAGCGA-GATAAGATTACCGA
*** * * * * * * * *
13379246 -TGCGATCTGCT-CTCTGCAACATCAGAGAGATAAGATCT--AAGGT-TTTAATCT-GCTCACTG
1 CTTTAATCTGCTCCACTACAACTTAAGGGAGATAAGATCTGCAA--TCTTCAGTCTACCTCACTG
* * *
13379305 CAACTTTAGCGAGATAGGATTACCGG
64 CAACTTCAGCGAGATAAGATTACCGA
* * * * * * *
13379331 CTTTAATCTACTCCACTGCAACTTCAGGGCGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCA
1 CTTTAATCTGCTCCACTACAACTTAAGGGAGATAAGATCTGCAATCTTCAGTCTACCTCACTGCA
* *
13379396 ACTTCAG-AAGGATAAGACTA--GA
66 ACTTCAGCGA-GATAAGATTACCGA
*** * * * * * *
13379418 C-GCGATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCT--AAGGT-TTTAATC--CGCTCACT
1 CTTTAATCTGCTCCACTACAACTTAAGGGAGATAAGATCTGCAA--TCTTCAGTCTAC-CTCACT
* *
13379476 GCAACTTCAG-AAGGATAAGACTA--GA
63 GCAACTTCAGCGA-GATAAGATTACCGA
*** * * * * * *
13379501 C-GCGATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCT--AAGGT-TTTAATC--CGCTCACT
1 CTTTAATCTGCTCCACTACAACTTAAGGGAGATAAGATCTGCAA--TCTTCAGTCTAC-CTCACT
* * *
13379559 GCAACTTCAGTGAGATAGGATTACCGG
63 GCAACTTCAGCGAGATAAGATTACCGA
* * ** * *
13379586 CTTTAATTTGCTTCACTACAACTTCGGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCA
1 CTTTAATCTGCTCCACTACAACTTAAGGGAGATAAGATCTGCAATCTTCAGTCTACCTCACTGCA
* **
13379651 ATTTCAG-GAGGATAAGGCTA--GA
66 ACTTCAGCGA-GATAAGATTACCGA
*** * * ** * * * *
13379673 -TGCGATATGCT-CTCTGTAACTTCAGAGAGATAAGATCT--AAGGT-TTTAATC--CGCTCACT
1 CTTTAATCTGCTCCACTACAACTTAAGGGAGATAAGATCTGCAA--TCTTCAGTCTAC-CTCACT
13379731 GCAACTTCAGCGAGATAAGATTACCGA
63 GCAACTTCAGCGAGATAAGATTACCGA
* *
13379758 CTTTAATCTGCTCCACTGCAACTTAAGGGAGATAAGATTTGCAATCTTCAGTCTACCTCACTGCA
1 CTTTAATCTGCTCCACTACAACTTAAGGGAGATAAGATCTGCAATCTTCAGTCTACCTCACTGCA
* *
13379823 ACTTCAG-GAGGATAAGACTTGCCTA
66 ACTTCAGCGA-GATAAGA-TTACCGA
* * **
13379848 C-TTAGTCTGCTCCACTACAACTTCAA-GGAGATACGATCTGTTATCTTCA
1 CTTTAATCTGCTCCACTACAACTT-AAGGGAGATAAGATCTGCAATCTTCA
13379897 CTGGTCTGCT
Statistics
Matches: 506, Mismatches: 103, Indels: 82
0.73 0.15 0.12
Matches are distributed among these distances:
82 2 0.00
83 156 0.31
84 20 0.04
85 73 0.14
86 41 0.08
87 72 0.14
88 21 0.04
89 111 0.22
90 10 0.02
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (89 bp):
CTTTAATCTGCTCCACTACAACTTAAGGGAGATAAGATCTGCAATCTTCAGTCTACCTCACTGCA
ACTTCAGCGAGATAAGATTACCGA
Found at i:13387917 original size:24 final size:24
Alignment explanation
Indices: 13387888--13387933 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
13387878 ATCATCTTTT
* *
13387888 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
13387912 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTCCTTTTG
13387934 GGATTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:13399109 original size:74 final size:74
Alignment explanation
Indices: 13398988--13399134 Score: 285
Period size: 74 Copynumber: 2.0 Consensus size: 74
13398978 AAAAGGGAGC
*
13398988 AAAGATGATGAAAAATCATCATCTTTCCATGCAACCAACGTTAGAAGAGAAGAGAAGAAAGAAAG
1 AAAGATGATGAAAAACCATCATCTTTCCATGCAACCAACGTTAGAAGAGAAGAGAAGAAAGAAAG
13399053 TTTTGCTTA
66 TTTTGCTTA
13399062 AAAGATGATGAAAAACCATCATCTTTCCATGCAACCAACGTTAGAAGAGAAGAGAAGAAAGAAAG
1 AAAGATGATGAAAAACCATCATCTTTCCATGCAACCAACGTTAGAAGAGAAGAGAAGAAAGAAAG
13399127 TTTTGCTT
66 TTTTGCTT
13399135 TCTTTACAAT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.22
Consensus pattern (74 bp):
AAAGATGATGAAAAACCATCATCTTTCCATGCAACCAACGTTAGAAGAGAAGAGAAGAAAGAAAG
TTTTGCTTA
Found at i:13408533 original size:18 final size:18
Alignment explanation
Indices: 13408518--13408551 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13408508 GGACGAAGTC
13408518 CCCAAAGAAGAAGAAGAT
1 CCCAAAGAAGAAGAAGAT
*
13408536 CCGAAAGAAGAA-AAGA
1 CCCAAAGAAGAAGAAGA
13408552 AGGATTCAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.59, C:0.15, G:0.24, T:0.03
Consensus pattern (18 bp):
CCCAAAGAAGAAGAAGAT
Found at i:13408649 original size:22 final size:22
Alignment explanation
Indices: 13408614--13408672 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
13408604 GAACTTCCTT
*
13408614 ATTATTATTTATTTTAAGACTTAG
1 ATTATT-TTAATTTTAAGA-TTAG
13408638 A-TATTTTAATTTTTAAGATTAG
1 ATTATTTTAA-TTTTAAGATTAG
*
13408660 ATTTTTTTAATTT
1 ATTATTTTAATTT
13408673 AATAGGTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 11 0.35
23 19 0.61
24 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (22 bp):
ATTATTTTAATTTTAAGATTAG
Found at i:13408651 original size:23 final size:23
Alignment explanation
Indices: 13408625--13408672 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
13408615 TTATTATTTA
13408625 TTTTAAGACTTAGA-TATTTTAAT
1 TTTTAAGA-TTAGATTATTTTAAT
*
13408648 TTTTAAGATTAGATTTTTTTAAT
1 TTTTAAGATTAGATTATTTTAAT
13408671 TT
1 TT
13408673 AATAGGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.58
Consensus pattern (23 bp):
TTTTAAGATTAGATTATTTTAAT
Found at i:13409304 original size:18 final size:20
Alignment explanation
Indices: 13409283--13409328 Score: 69
Period size: 18 Copynumber: 2.4 Consensus size: 20
13409273 TTGTGGGAAC
*
13409283 AAAAGCATTGTGAG-G-GTT
1 AAAAGCATTGTGAGTGTGAT
13409301 AAAAGCATTGTGAGTGTGAT
1 AAAAGCATTGTGAGTGTGAT
13409321 AAAAGCAT
1 AAAAGCAT
13409329 AAAACGAGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 14 0.56
19 1 0.04
20 10 0.40
ACGTcount: A:0.39, C:0.07, G:0.28, T:0.26
Consensus pattern (20 bp):
AAAAGCATTGTGAGTGTGAT
Found at i:13411507 original size:10 final size:10
Alignment explanation
Indices: 13411492--13411553 Score: 58
Period size: 10 Copynumber: 6.3 Consensus size: 10
13411482 AGGTTGATGG
13411492 AATAAAAATA
1 AATAAAAATA
*
13411502 AATAAAGAAAA
1 AATAAA-AATA
*
13411513 AATAGAAATA
1 AATAAAAATA
13411523 AATAAAGAA-A
1 AATAAA-AATA
13411533 AATAAAAA-A
1 AATAAAAATA
*
13411542 AAT-GAAATA
1 AATAAAAATA
13411551 AAT
1 AAT
13411554 CAGTAAACCA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
8 3 0.07
9 10 0.23
10 21 0.48
11 10 0.23
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.16
Consensus pattern (10 bp):
AATAAAAATA
Found at i:13411521 original size:21 final size:21
Alignment explanation
Indices: 13411492--13411544 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
13411482 AGGTTGATGG
13411492 AATAAAAATAAATAAAGAAAA
1 AATAAAAATAAATAAAGAAAA
*
13411513 AATAGAAATAAATAAAG-AAA
1 AATAAAAATAAATAAAGAAAA
13411533 AATAAAAA-AAAT
1 AATAAAAATAAAT
13411545 GAAATAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 4 0.13
20 10 0.33
21 16 0.53
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (21 bp):
AATAAAAATAAATAAAGAAAA
Found at i:13411549 original size:14 final size:13
Alignment explanation
Indices: 13411492--13411552 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
13411482 AGGTTGATGG
13411492 AATAAAAATAAATA
1 AATAAAAA-AAATA
* * *
13411506 AAGAAAAAATAGA
1 AATAAAAAAAATA
13411519 AATAAATAAAGAA-A
1 AATAAA-AAA-AATA
13411533 AATAAAAAAAATGA
1 AATAAAAAAAAT-A
13411547 AATAAA
1 AATAAA
13411553 TCAGTAAACC
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
12 2 0.05
13 11 0.29
14 24 0.63
15 1 0.03
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.15
Consensus pattern (13 bp):
AATAAAAAAAATA
Found at i:13418747 original size:37 final size:37
Alignment explanation
Indices: 13418713--13418847 Score: 89
Period size: 37 Copynumber: 3.7 Consensus size: 37
13418703 AGCCAAATCT
*
13418713 TACCGTTATACTGAGTAAAGCTCAATCAAGCAAATTA
1 TACCGTTATACTGAGTAAAGCTCAATCGAGCAAATTA
** ** *
13418750 TATTGTTATACTGA--ATGGTCTTAA-CTGAGCAAATCT-
1 TACCGTTATACTGAGTAAAG-CTCAATC-GAGCAAAT-TA
* * * * *
13418786 TACCGTTATACTGAATGATGTTCAATCGAGCAAATTC
1 TACCGTTATACTGAGTAAAGCTCAATCGAGCAAATTA
** *
13418823 TATTGTTATACTGAGTGAAGCTCAA
1 TACCGTTATACTGAGTAAAGCTCAA
13418848 ATAAGTTAAA
Statistics
Matches: 73, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
35 3 0.04
36 24 0.33
37 44 0.60
38 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (37 bp):
TACCGTTATACTGAGTAAAGCTCAATCGAGCAAATTA
Found at i:13419144 original size:14 final size:14
Alignment explanation
Indices: 13419125--13419158 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
13419115 CACATTTTTT
13419125 CATTTTGTAGATAA
1 CATTTTGTAGATAA
*
13419139 CATTTTGTAGATCA
1 CATTTTGTAGATAA
13419153 CATTTT
1 CATTTT
13419159 TTCATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (14 bp):
CATTTTGTAGATAA
Found at i:13420526 original size:20 final size:19
Alignment explanation
Indices: 13420500--13420546 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
13420490 TGACTTGAAC
*
13420500 AAAAAATAAA-AGTAAAATA
1 AAAAAATAAACA-AAAAATA
13420519 AAATAAATAAACAAAAAATA
1 AAA-AAATAAACAAAAAATA
13420539 AAAAAATA
1 AAAAAATA
13420547 GTATTTATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 8 0.32
20 16 0.64
21 1 0.04
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (19 bp):
AAAAAATAAACAAAAAATA
Found at i:13425903 original size:79 final size:81
Alignment explanation
Indices: 13425767--13425951 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
13425757 TTGAATGATG
* *
13425767 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
13425831 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
13425846 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
13425908 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
13425926 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
13425952 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:13425965 original size:40 final size:40
Alignment explanation
Indices: 13425768--13425951 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
13425758 TGAATGATGT
* * * *
13425768 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
13425808 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
13425848 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
13425886 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
13425927 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
13425952 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:13425973 original size:79 final size:79
Alignment explanation
Indices: 13425820--13425984 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
13425810 GGACTAAGAT
* * **
13425820 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
13425885 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
13425899 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
13425962 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
13425978 CCGAAGG
1 CCGAAGG
13425985 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:13434329 original size:39 final size:41
Alignment explanation
Indices: 13434234--13434417 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
13434224 TTGAATGATG
*
13434234 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
13434273 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
13434313 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
13434352 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
13434392 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
13434418 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:13434369 original size:79 final size:81
Alignment explanation
Indices: 13434234--13434417 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
13434224 TTGAATGATG
13434234 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
13434297 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
13434312 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
13434373 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
13434392 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
13434418 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:13434439 original size:79 final size:79
Alignment explanation
Indices: 13434286--13434450 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
13434276 GGACTAAGAT
* ** *
13434286 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
13434351 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
13434365 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
13434427 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
13434444 CCGAAGG
1 CCGAAGG
13434451 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:13441560 original size:42 final size:43
Alignment explanation
Indices: 13441473--13441579 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 43
13441463 TAAATTAGAA
* * * * *
13441473 AGAAGATAATCTTGAGTAT-TGGCAAAAAGAATTTAAAAAGAGG
1 AGAAGATAATCTTGGGT-TGTTGAAAAAAAAAATTAAAAAGAGG
13441516 AGAAGATAATCTTGGGTTGTTGAAAAAAAAAATTAAAAA-AGG
1 AGAAGATAATCTTGGGTTGTTGAAAAAAAAAATTAAAAAGAGG
* *
13441558 AGAAGATAAACTTGGGCTGTTG
1 AGAAGATAATCTTGGGTTGTTG
13441580 GATTTACCCT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
42 24 0.43
43 32 0.57
ACGTcount: A:0.47, C:0.05, G:0.24, T:0.24
Consensus pattern (43 bp):
AGAAGATAATCTTGGGTTGTTGAAAAAAAAAATTAAAAAGAGG
Found at i:13446109 original size:333 final size:333
Alignment explanation
Indices: 13445503--13446168 Score: 1280
Period size: 333 Copynumber: 2.0 Consensus size: 333
13445493 TTTTTCTTCT
13445503 AATCTGGAAGGGAACGGTACCTGTGTGTTAATGGCCTTGTCTTTTATCCTATCTTATGGTTTGAC
1 AATCTGGAAGGGAACGGTACCTGTGTGTTAATGGCCTTGTCTTTTATCCTATCTTATGGTTTGAC
13445568 TGTCGGTTCGATGACCTCCACTGGCTCTGGTTCCTAATAAGCTTCTTGGGTCATTTGGGTTAGCC
66 TGTCGGTTCGATGACCTCCACTGGCTCTGGTTCCTAATAAGCTTCTTGGGTCATTTGGGTTAGCC
13445633 CTATCGTGAGGTTTCTACAAATAAAGAGTTTGGTAATTAGTGTTTTTAGCTTGATTTGAATTATT
131 CTATCGTGAGGTTTCTACAAATAAAGAGTTTGGTAATTAGTGTTTTTAGCTTGATTTGAATTATT
13445698 ACCTCCTCATTGATTTCTTACCCATCACAAGTTTGGGGGATCCCTTCAGCCAGGATTGCAAGTAT
196 ACCTCCTCATTGATTTCTTACCCATCACAAGTTTGGGGGATCCCTTCAGCCAGGATTGCAAGTAT
* *
13445763 TTGAATAAGGGTTTCCACCCTTATTCCCAATATAATTTACATCATC-AGTGGGATTATTGATATA
261 TTGAATAAGGGTTTCCACCCATATTCCCAATATAATTTACATCATCGA-TAGGATTATTGATATA
13445827 ATAGAAGAG
325 ATAGAAGAG
13445836 AATCTGGAAGGGAACGGTACCTGTGTGTTAATGGCCTTGTCTTTTATCCTATCTTATGGTTTGAC
1 AATCTGGAAGGGAACGGTACCTGTGTGTTAATGGCCTTGTCTTTTATCCTATCTTATGGTTTGAC
13445901 TGTCGGTTCGATGACCTCCACTGGCTCTGGTTCCTAATAAGCTTCTTGGGTCATTTGGGTTAGCC
66 TGTCGGTTCGATGACCTCCACTGGCTCTGGTTCCTAATAAGCTTCTTGGGTCATTTGGGTTAGCC
13445966 CTATCGTGAGGTTTCTACAAATAAAGAGTTTGGTAATTAGTGTTTTTAGCTTGATTTGAATTATT
131 CTATCGTGAGGTTTCTACAAATAAAGAGTTTGGTAATTAGTGTTTTTAGCTTGATTTGAATTATT
13446031 ACCTCCTCATTGATTTCTTACCCATCACAAGTTTGGGGGATCCCTTCAGCCAGGATTGCAAGTAT
196 ACCTCCTCATTGATTTCTTACCCATCACAAGTTTGGGGGATCCCTTCAGCCAGGATTGCAAGTAT
*
13446096 TTGAATAAGGGTTTCCACCCATATTCCCAATGTAATTTACATCATCGATAGGATTATTGATATAA
261 TTGAATAAGGGTTTCCACCCATATTCCCAATATAATTTACATCATCGATAGGATTATTGATATAA
*
13446161 TGGAAGAG
326 TAGAAGAG
13446169 CGGTTTGTCT
Statistics
Matches: 328, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
333 327 1.00
334 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (333 bp):
AATCTGGAAGGGAACGGTACCTGTGTGTTAATGGCCTTGTCTTTTATCCTATCTTATGGTTTGAC
TGTCGGTTCGATGACCTCCACTGGCTCTGGTTCCTAATAAGCTTCTTGGGTCATTTGGGTTAGCC
CTATCGTGAGGTTTCTACAAATAAAGAGTTTGGTAATTAGTGTTTTTAGCTTGATTTGAATTATT
ACCTCCTCATTGATTTCTTACCCATCACAAGTTTGGGGGATCCCTTCAGCCAGGATTGCAAGTAT
TTGAATAAGGGTTTCCACCCATATTCCCAATATAATTTACATCATCGATAGGATTATTGATATAA
TAGAAGAG
Found at i:13448728 original size:78 final size:78
Alignment explanation
Indices: 13448585--13448773 Score: 220
Period size: 78 Copynumber: 2.4 Consensus size: 78
13448575 ATGTACCTGA
* * * * * *
13448585 TTAGCAGGCCT-TGAGCGAGTGTTCATTTAGTAGGCCTTGAGTCAGTGTTTATTTAGTAGGTTTT
1 TTAGCAGG-CTATGAGCCAGTGTTTATTTAGCAGGCCTTGAATCAGTGATTATTTAGTAGGCTTT
*
13448649 GAGCCGGTGATTAC
65 GAGCCAGTGATTAC
* * * *
13448663 TTAGTAGTCTATGAGCTAGTGTTTATTTAGCAGGCTTTGAATCAGTGATTATTTAGCT-GGCTTT
1 TTAGCAGGCTATGAGCCAGTGTTTATTTAGCAGGCCTTGAATCAGTGATTATTTAG-TAGGCTTT
* *
13448727 GAGCCATTGTTTAC
65 GAGCCAGTGATTAC
*
13448741 TTAGCAGGCTTTGAGCCAGTGTTTATTTAGCAG
1 TTAGCAGGCTATGAGCCAGTGTTTATTTAGCAG
13448774 ACATTGAGCC
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
77 2 0.02
78 90 0.97
79 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.39
Consensus pattern (78 bp):
TTAGCAGGCTATGAGCCAGTGTTTATTTAGCAGGCCTTGAATCAGTGATTATTTAGTAGGCTTTG
AGCCAGTGATTAC
Found at i:13448771 original size:26 final size:26
Alignment explanation
Indices: 13448585--13448783 Score: 191
Period size: 26 Copynumber: 7.7 Consensus size: 26
13448575 ATGTACCTGA
* * *
13448585 TTAGCAGGCCTTGAGCGAGTGTTCAT
1 TTAGCAGGCTTTGAGCCAGTGTTTAT
* * *
13448611 TTAGTAGGCCTTGAGTCAGTGTTTAT
1 TTAGCAGGCTTTGAGCCAGTGTTTAT
* * * * *
13448637 TTAGTAGGTTTTGAGCCGGTGATTAC
1 TTAGCAGGCTTTGAGCCAGTGTTTAT
* * * *
13448663 TTAGTAGTCTATGAGCTAGTGTTTAT
1 TTAGCAGGCTTTGAGCCAGTGTTTAT
** *
13448689 TTAGCAGGCTTTGAATCAGTGATTAT
1 TTAGCAGGCTTTGAGCCAGTGTTTAT
* * *
13448715 TTAGCTGGCTTTGAGCCATTGTTTAC
1 TTAGCAGGCTTTGAGCCAGTGTTTAT
13448741 TTAGCAGGCTTTGAGCCAGTGTTTAT
1 TTAGCAGGCTTTGAGCCAGTGTTTAT
* *
13448767 TTAGCAGACATTGAGCC
1 TTAGCAGGCTTTGAGCC
13448784 GGGGAATATA
Statistics
Matches: 138, Mismatches: 35, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 138 1.00
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (26 bp):
TTAGCAGGCTTTGAGCCAGTGTTTAT
Found at i:13449710 original size:246 final size:246
Alignment explanation
Indices: 13449276--13449767 Score: 966
Period size: 246 Copynumber: 2.0 Consensus size: 246
13449266 TTTGGTTTAG
13449276 CCAATAAGTACAGTTTATTCTTTAAAGTTTCCCCTATTTCACTGTTCGATAGTTCCAATCCCTCT
1 CCAATAAGTACAGTTTATTCTTTAAAGTTTCCCCTATTTCACTGTTCGATAGTTCCAATCCCTCT
13449341 TCACTAAAAATTAATTATCTCTTTGTATAGAATTCAGATGATGCCCATGTCTATTTATATTGAAA
66 TCACTAAAAATTAATTATCTCTTTGTATAGAATTCAGATGATGCCCATGTCTATTTATATTGAAA
13449406 ATAGACTCATTAAGGATTTTAAATATATAAATTATAACCCATAATTATTTTTATACAATTTTTAA
131 ATAGACTCATTAAGGATTTTAAATATATAAATTATAACCCATAATTATTTTTATACAATTTTTAA
13449471 TGATTTTCCAAGTCAGAACAGGGGAACTCAAATTCATTCTAACCTTATCTA
196 TGATTTTCCAAGTCAGAACAGGGGAACTCAAATTCATTCTAACCTTATCTA
13449522 CCAATAAGTACAGTTTATTCTTTAAAGTTTCCCCTATTTCACTGTTCGATAGTTCCAATCCCTCT
1 CCAATAAGTACAGTTTATTCTTTAAAGTTTCCCCTATTTCACTGTTCGATAGTTCCAATCCCTCT
* *
13449587 TCACTAAAAATTAATTATCTCTTTGTATAGAATTCAGATGATGTCCATGTTTATTTATATTGAAA
66 TCACTAAAAATTAATTATCTCTTTGTATAGAATTCAGATGATGCCCATGTCTATTTATATTGAAA
13449652 ATAGACTCATTAAGGATTTTAAATATATAAATTATAACCCATAATTATTTTTATACAATTTTTAA
131 ATAGACTCATTAAGGATTTTAAATATATAAATTATAACCCATAATTATTTTTATACAATTTTTAA
13449717 TGATTTTCCAAGTCAGAACAGGGGAACTCAAATTCATTCTAACCTTATCTA
196 TGATTTTCCAAGTCAGAACAGGGGAACTCAAATTCATTCTAACCTTATCTA
13449768 ACAAAATTTA
Statistics
Matches: 244, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
246 244 1.00
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.39
Consensus pattern (246 bp):
CCAATAAGTACAGTTTATTCTTTAAAGTTTCCCCTATTTCACTGTTCGATAGTTCCAATCCCTCT
TCACTAAAAATTAATTATCTCTTTGTATAGAATTCAGATGATGCCCATGTCTATTTATATTGAAA
ATAGACTCATTAAGGATTTTAAATATATAAATTATAACCCATAATTATTTTTATACAATTTTTAA
TGATTTTCCAAGTCAGAACAGGGGAACTCAAATTCATTCTAACCTTATCTA
Found at i:13452865 original size:26 final size:26
Alignment explanation
Indices: 13452835--13452901 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 26
13452825 ATTATGTGAT
* *
13452835 AAATGGTTTTATGAAATTACTATATG
1 AAATGGTTTTATGAAATAAATATATG
13452861 AAAT-GTTTATATAGAAATAAATATATG
1 AAATGGTTT-TAT-GAAATAAATATATG
*
13452888 -AATGGTTATATGAA
1 AAATGGTTTTATGAA
13452902 GTGTTTATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
25 7 0.20
26 13 0.37
27 15 0.43
ACGTcount: A:0.45, C:0.01, G:0.15, T:0.39
Consensus pattern (26 bp):
AAATGGTTTTATGAAATAAATATATG
Found at i:13452871 original size:13 final size:13
Alignment explanation
Indices: 13452855--13452916 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
13452845 ATGAAATTAC
13452855 TATATGAAATGTT
1 TATATGAAATGTT
***
13452868 TATATAGAAATAAA
1 TATAT-GAAATGTT
*
13452882 TATATG-AATGGT
1 TATATGAAATGTT
*
13452894 TATATGAAGTGTT
1 TATATGAAATGTT
*
13452907 TATAGGAAAT
1 TATATGAAAT
13452917 ATTTGTTGGA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
12 9 0.24
13 18 0.49
14 10 0.27
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.39
Consensus pattern (13 bp):
TATATGAAATGTT
Found at i:13452878 original size:27 final size:26
Alignment explanation
Indices: 13452835--13452901 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
13452825 ATTATGTGAT
* *
13452835 AAATGGTTT-TATGAAATTACTATATG
1 AAAT-GTTTATATGAAATAAATATATG
13452861 AAATGTTTATATAGAAATAAATATATG
1 AAATGTTTATAT-GAAATAAATATATG
*
13452888 -AATGGTTATATGAA
1 AAATGTTTATATGAA
13452902 GTGTTTATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 7 0.19
26 17 0.47
27 12 0.33
ACGTcount: A:0.45, C:0.01, G:0.15, T:0.39
Consensus pattern (26 bp):
AAATGTTTATATGAAATAAATATATG
Found at i:13456727 original size:55 final size:53
Alignment explanation
Indices: 13456642--13456811 Score: 152
Period size: 55 Copynumber: 3.2 Consensus size: 53
13456632 CTAAAATAGG
* * * *
13456642 TAAAATAACCAAAATACCCCTGA-AGGGTAAAATGACTATTTTACCTCTA-ATAGA
1 TAAAATGACCAAAATACCCC-CATA-GGTAAAATGACTATTATACCCCTATA-AGA
* * *
13456696 TGAAAATGACTAAAATACCCCCATAGAGTAAAATGACCGA-AATACCCCTATAAGA
1 T-AAAATGACCAAAATACCCCCATAG-GTAAAATGA-CTATTATACCCCTATAAGA
* **
13456751 TAAAATGACCAAAATACCCCCATAGGATAAAATGATTATTAT--CCCTAGGAGA
1 TAAAATGACCAAAATACCCCCATAGG-TAAAATGACTATTATACCCCTATAAGA
13456803 TAAAATGAC
1 TAAAATGAC
13456812 TGTTATGGCA
Statistics
Matches: 96, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
52 17 0.18
53 2 0.02
54 36 0.38
55 38 0.40
56 3 0.03
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.22
Consensus pattern (53 bp):
TAAAATGACCAAAATACCCCCATAGGTAAAATGACTATTATACCCCTATAAGA
Found at i:13456729 original size:27 final size:28
Alignment explanation
Indices: 13456693--13456785 Score: 129
Period size: 27 Copynumber: 3.4 Consensus size: 28
13456683 TACCTCTAAT
*
13456693 AGATGAAAATGACTAAAATACCCCCATAG
1 AGAT-AAAATGACCAAAATACCCCCATAG
* *
13456722 AG-TAAAATGACCGAAATACCCCTATA-
1 AGATAAAATGACCAAAATACCCCCATAG
13456748 AGATAAAATGACCAAAATACCCCCATAG
1 AGATAAAATGACCAAAATACCCCCATAG
13456776 -GATAAAATGA
1 AGATAAAATGA
13456786 TTATTATCCC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
26 2 0.04
27 52 0.91
28 1 0.02
29 2 0.04
ACGTcount: A:0.49, C:0.20, G:0.13, T:0.17
Consensus pattern (28 bp):
AGATAAAATGACCAAAATACCCCCATAG
Found at i:13457198 original size:28 final size:28
Alignment explanation
Indices: 13457149--13457293 Score: 188
Period size: 28 Copynumber: 5.2 Consensus size: 28
13457139 ATTGCATTGT
*
13457149 ACTGTTACTG-ATTTGGACTAAGGCCCAC
1 ACTGTTACTGTA-TTGGGCTAAGGCCCAC
*
13457177 ACTGATT-CTGTATTGGGATAAGGCCCAC
1 ACTG-TTACTGTATTGGGCTAAGGCCCAC
** *
13457205 ACTGATT-CTGTATTGATCTAACGCCCAC
1 ACTG-TTACTGTATTGGGCTAAGGCCCAC
13457233 ACTGTTACTGTATTGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
*
13457261 ACTGTTATTGTATTGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
13457289 ACTGT
1 ACTGT
13457294 ACTATCACTG
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
27 2 0.02
28 99 0.95
29 3 0.03
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:13466821 original size:27 final size:26
Alignment explanation
Indices: 13466763--13466864 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 26
13466753 GTAAATGTCA
* *
13466763 AAAGTCTA-CAAGGACTATATTATGCGG
1 AAAGTCTATC-AGGACTAT-TTTTGTGG
* * *
13466790 GAAGTTTTTCAGGACTATCTTTTGTGG
1 AAAGTCTATCAGGACTAT-TTTTGTGG
*
13466817 AAAGTCTATCAAGACTATTTTATGTGG
1 AAAGTCTATCAGGACTATTTT-TGTGG
* *
13466844 -AAGCTCCATCATGACTATTTT
1 AAAG-TCTATCAGGACTATTTT
13466865 ATGTACTGAC
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
26 6 0.10
27 53 0.88
28 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (26 bp):
AAAGTCTATCAGGACTATTTTTGTGG
Found at i:13466865 original size:27 final size:27
Alignment explanation
Indices: 13466802--13466868 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
13466792 AGTTTTTCAG
*
13466802 GACTATCTTT-TGTGGAAAGTCTATCAA
1 GACTAT-TTTATGTGGAAAGTCCATCAA
*
13466829 GACTATTTTATGTGG-AAGCTCCATCAT
1 GACTATTTTATGTGGAAAG-TCCATCAA
13466856 GACTATTTTATGT
1 GACTATTTTATGT
13466869 ACTGACAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 6 0.17
27 30 0.83
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (27 bp):
GACTATTTTATGTGGAAAGTCCATCAA
Found at i:13478470 original size:27 final size:28
Alignment explanation
Indices: 13478386--13478483 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
13478376 CATGAGATTG
* * * *
13478386 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
13478415 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
13478443 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
13478470 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
13478484 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:13478494 original size:27 final size:27
Alignment explanation
Indices: 13478414--13478496 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
13478404 TAAATTGTAC
* *
13478414 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
13478442 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
13478469 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
13478496 A
1 A
13478497 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:13478497 original size:29 final size:27
Alignment explanation
Indices: 13478386--13478497 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
13478376 CATGAGATTG
** * *
13478386 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
13478415 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
13478443 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
13478470 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
13478498 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:13480247 original size:28 final size:28
Alignment explanation
Indices: 13480213--13480347 Score: 207
Period size: 28 Copynumber: 4.8 Consensus size: 28
13480203 CAGTAATAGT
* * * *
13480213 ACAGTGTGTGCCTTAGCTCGATATAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
13480241 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
13480269 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
*
13480297 ACAGTGTGGGCCTTAGCCCAATACAATA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
* *
13480325 ACAATGTGGGTCTTAGCCCAATA
1 ACAGTGTGGGCCTTAGCCCAATA
13480348 TAGTGACCAG
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 100 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:13480488 original size:26 final size:26
Alignment explanation
Indices: 13480458--13480515 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
13480448 GCCAACACAC
*
13480458 CAATATCGTAGCAAAGCTGCCAGTAA
1 CAATATCGCAGCAAAGCTGCCAGTAA
* **
13480484 TAATATCGCAGTGAAGCTGCCAGTAA
1 CAATATCGCAGCAAAGCTGCCAGTAA
13480510 CAATAT
1 CAATAT
13480516 ATGTGTCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (26 bp):
CAATATCGCAGCAAAGCTGCCAGTAA
Found at i:13480737 original size:27 final size:27
Alignment explanation
Indices: 13480707--13481054 Score: 322
Period size: 27 Copynumber: 12.9 Consensus size: 27
13480697 GGGTATACCA
*
13480707 GTCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
13480734 GTCATTCTACCCTACGGGGGCATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
**
13480761 GTCATTTTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
13480788 GTAATTTTACCCTAAT-GGGGTATTTCA
1 GTCATTTTACCCT-ATGGGGGTATTTCG
* * **
13480815 GTCATTCTACCATACAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
13480842 ATCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
13480869 GTCATTCTACCCAATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * **
13480896 GTCATTTTACCCTACGAGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
13480923 GTCATTTTACCCAATGGGGATATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
13480950 ATGTTTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
** *
13480977 ACCAATTTACCCTA-GGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
13481003 GTCATTTTATCTTACGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
13481030 ATCATTTTACCCTACCGGGGTATTT
1 GTCATTTTACCCTATGGGGGTATTT
13481055 TGATGTCTCG
Statistics
Matches: 261, Mismatches: 57, Indels: 6
0.81 0.18 0.02
Matches are distributed among these distances:
26 22 0.08
27 237 0.91
28 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:13480819 original size:81 final size:81
Alignment explanation
Indices: 13480706--13481054 Score: 361
Period size: 81 Copynumber: 4.3 Consensus size: 81
13480696 GGGGTATACC
* * *
13480706 AGTCATTTTA-CCTTATGGGGGTATTTCGGTCATTCTACCCTACGGGGGCATTTTGGTCATTTTA
1 AGTCATTTTACCCTAAT-GGGGTATTTCGGTCATTCTACCCTACGGGGGTATTTCGGTCATTTTA
13480770 CCCTATGGGGGTATTTT
65 CCCTATGGGGGTATTTT
* * * * *
13480787 AGTAATTTTACCCTAATGGGGTATTTCAGTCATTCTACCATACAGGGGTATTTCGATCATTTTAC
1 AGTCATTTTACCCTAATGGGGTATTTCGGTCATTCTACCCTACGGGGGTATTTCGGTCATTTTAC
*
13480852 CCTATGAGGGTATTTT
66 CCTATGGGGGTATTTT
* * * * **
13480868 GGTCATTCTACCC-AATGAGGGTATTTCGGTCATTTTACCCTACGAGGGTATTTTAGTCATTTTA
1 AGTCATTTTACCCTAATG-GGGTATTTCGGTCATTCTACCCTACGGGGGTATTTCGGTCATTTTA
* *
13480932 CCCAATGGGGATATTTT
65 CCCTATGGGGGTATTTT
**
13480949 GATGT--TTTTACCCT-ATGGGGGTATTTCGACCAATT-TACCCTA-GGGGGTATTTCGGTCATT
1 -A-GTCATTTTACCCTAAT-GGGGTATTTCGGTC-ATTCTACCCTACGGGGGTATTTCGGTCATT
* * * *
13481009 TTATCTTACGGGGGTATTTC
62 TTACCCTATGGGGGTATTTT
* **
13481029 AATCATTTTACCCTACCGGGGTATTT
1 AGTCATTTTACCCTAATGGGGTATTT
13481055 TGATGTCTCG
Statistics
Matches: 219, Mismatches: 39, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
78 1 0.00
79 1 0.00
80 51 0.23
81 155 0.71
82 9 0.04
83 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (81 bp):
AGTCATTTTACCCTAATGGGGTATTTCGGTCATTCTACCCTACGGGGGTATTTCGGTCATTTTAC
CCTATGGGGGTATTTT
Found at i:13483556 original size:27 final size:26
Alignment explanation
Indices: 13483059--13483554 Score: 499
Period size: 27 Copynumber: 18.4 Consensus size: 26
13483049 TAGTACAATG
**
13483059 GGGGTATTTTAGTCATTTTACCCCTAT
1 GGGGTATTTCGGTCATTTTA-CCCTAT
*
13483086 AGGGGTATTTTGGTCATTTTACCCTAT
1 -GGGGTATTTCGGTCATTTTACCCTAT
* *
13483113 GAGGGTATTTTGGTCATTTTAACCTAT
1 G-GGGTATTTCGGTCATTTTACCCTAT
*
13483140 GGCGATATTTCGGTCATTTTACCCTAT
1 GG-GGTATTTCGGTCATTTTACCCTAT
** * * *
13483167 GGGGGTATTTTAGTTATTTTACCTTAC
1 -GGGGTATTTCGGTCATTTTACCCTAT
* *
13483194 GAGGGTAATTCGATCATTTTACCCTAT
1 G-GGGTATTTCGGTCATTTTACCCTAT
* *
13483221 AGGGGTATTTCAGTTATTTTACCCTAT
1 -GGGGTATTTCGGTCATTTTACCCTAT
*
13483248 AGGGGTATTTTGGTCATTTTACCCTAT
1 -GGGGTATTTCGGTCATTTTACCCTAT
* *
13483275 AGGGGTATTTCGGCCATTTTACCTTAT
1 -GGGGTATTTCGGTCATTTTACCCTAT
* * *
13483302 GGGGGTATTTTGGTTATTTTACCTTAT
1 -GGGGTATTTCGGTCATTTTACCCTAT
**
13483329 GAGGGTATTTCAATCATTTTACCCTAT
1 G-GGGTATTTCGGTCATTTTACCCTAT
* * * *
13483356 GGGTGTATTTTGATCATTTTACACTAC
1 GGG-GTATTTCGGTCATTTTACCCTAT
*
13483383 GGGGTATTTCGGTCATTTTACCTTAT
1 GGGGTATTTCGGTCATTTTACCCTAT
13483409 GAGGGTATTTCGGTCATTTTACCCTAT
1 G-GGGTATTTCGGTCATTTTACCCTAT
**
13483436 GGGTGTATTTCAATCATTTTACCCTAT
1 GGG-GTATTTCGGTCATTTTACCCTAT
* *
13483463 GGGGGTATTTCGGTTAATTTACCCTAT
1 -GGGGTATTTCGGTCATTTTACCCTAT
*
13483490 CGGGGTATTTCGGTCATTTTACCCTACG
1 -GGGGTATTTCGGTCATTTTACCCTA-T
* * *
13483518 GGGGT-TTTCGATCATTTTATCTTATT
1 GGGGTATTTCGGTCATTTTACCCTA-T
13483544 GGGGTATTTCG
1 GGGGTATTTCG
13483555 ATGTCTCGGT
Statistics
Matches: 394, Mismatches: 62, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
26 48 0.12
27 321 0.81
28 25 0.06
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (26 bp):
GGGGTATTTCGGTCATTTTACCCTAT
Found at i:13485768 original size:40 final size:40
Alignment explanation
Indices: 13485724--13485802 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
13485714 TGTCTAAATT
* *
13485724 CACATACGTGCCCCTGTTTGTACTTTAGT-ACCCTTGAATG
1 CACATACGTGCCCCTATTTATACTTTAGTAACCC-TGAATG
*
13485764 CACATACGTGCCCCTATTTATACTTTGGTAACCCTGAAT
1 CACATACGTGCCCCTATTTATACTTTAGTAACCCTGAAT
13485803 CAAATAGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 31 0.89
41 4 0.11
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (40 bp):
CACATACGTGCCCCTATTTATACTTTAGTAACCCTGAATG
Found at i:13487280 original size:201 final size:201
Alignment explanation
Indices: 13486935--13487339 Score: 783
Period size: 201 Copynumber: 2.0 Consensus size: 201
13486925 GTAAACTTCA
*
13486935 TGAGACTTTGGGCATTAAACTCAATTTCAGTACAGCATTTCATCCTCAGACGGACGGGCAATTAG
1 TGAGACTTTGGGCATTAAACTCAATTTCAGTACAGCATTTCATCCTCAGACGGACGGGCAATCAG
13487000 AACAAGTAATACAGATTCTGGAAGACATGCTACGATATTGTATACTCGAGTTTGAAGGTAGCTGA
66 AACAAGTAATACAGATTCTGGAAGACATGCTACGATATTGTATACTCGAGTTTGAAGGTAGCTGA
*
13487065 GAATAATATCTGCCATTAGCTGAGTTCGCTTGTAATAACAATTATCAATCCAGTATTAAACTGGC
131 GAATAATATCTGCCATTAGCTGAGTTCACTTGTAATAACAATTATCAATCCAGTATTAAACTGGC
13487130 ACCGTT
196 ACCGTT
13487136 TGAGACTTTGGGCATTAAACTCAATTTCAGTACAGCATTTCATCCTCAGACGGACGGGCAATCAG
1 TGAGACTTTGGGCATTAAACTCAATTTCAGTACAGCATTTCATCCTCAGACGGACGGGCAATCAG
*
13487201 AACAAGTAATACAGATTCTGGAAGACATGCTACGATGTTGTATACTCGAGTTTGAAGGTAGCTGA
66 AACAAGTAATACAGATTCTGGAAGACATGCTACGATATTGTATACTCGAGTTTGAAGGTAGCTGA
13487266 GAATAATATCTGCCATTAGCTGAGTTCACTTGTAATAACAATTATCAATCCAGTATTAAACTGGC
131 GAATAATATCTGCCATTAGCTGAGTTCACTTGTAATAACAATTATCAATCCAGTATTAAACTGGC
13487331 ACCGTT
196 ACCGTT
13487337 TGA
1 TGA
13487340 AGCTTATACG
Statistics
Matches: 201, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
201 201 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (201 bp):
TGAGACTTTGGGCATTAAACTCAATTTCAGTACAGCATTTCATCCTCAGACGGACGGGCAATCAG
AACAAGTAATACAGATTCTGGAAGACATGCTACGATATTGTATACTCGAGTTTGAAGGTAGCTGA
GAATAATATCTGCCATTAGCTGAGTTCACTTGTAATAACAATTATCAATCCAGTATTAAACTGGC
ACCGTT
Found at i:13489089 original size:80 final size:80
Alignment explanation
Indices: 13488997--13489202 Score: 270
Period size: 80 Copynumber: 2.6 Consensus size: 80
13488987 TAATTATTGT
* * * *
13488997 CTGAATGCACATACGTGCCCCTATTTGTACTTTGGTATCCCTGAATACACATATGTGGCCTTGTA
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAACCCTGAATACACATATGTGCCCCTGT-
*
13489062 TT-TACTTCGGTACCC
65 TTGTACTTCGGTACAC
* * * **
13489077 CTGAATGCACATACGTGCCCCTGTATGTACTTCGGTACCCCTGAATGTACATATGTGCCCCTGTT
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAACCCTGAATACACATATGTGCCCCTGTT
13489142 TGTACTTCGGTACAC
66 TGTACTTCGGTACAC
* * * *
13489157 CTGAATGCACATACATGCCCATGTTTATACTTTGGTAACCTTGAAT
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAACCCTGAAT
13489203 CAAATAGTAT
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
79 2 0.02
80 107 0.98
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.33
Consensus pattern (80 bp):
CTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAACCCTGAATACACATATGTGCCCCTGTT
TGTACTTCGGTACAC
Found at i:13489099 original size:20 final size:20
Alignment explanation
Indices: 13489074--13489139 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
13489064 TACTTCGGTA
*
13489074 CCCCTGAATGCACATACGTG
1 CCCCTGAATGTACATACGTG
* * *
13489094 CCCCTGTATGTAC-TTCGGTA
1 CCCCTGAATGTACATAC-GTG
*
13489114 CCCCTGAATGTACATATGTG
1 CCCCTGAATGTACATACGTG
13489134 CCCCTG
1 CCCCTG
13489140 TTTGTACTTC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.06
20 33 0.92
21 1 0.03
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.27
Consensus pattern (20 bp):
CCCCTGAATGTACATACGTG
Found at i:13489176 original size:40 final size:40
Alignment explanation
Indices: 13488997--13489202 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 40
13488987 TAATTATTGT
* *
13488997 CTGAATGCACATACGTGCCCCTATTTGTACTTTGGTATC-C
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTA-CAC
* * * * *
13489037 CTGAATACACATATGTGGCCTTGTATT-TACTTCGGTACCC
1 CTGAATGCACATACGTGCCCCTGT-TTGTACTTCGGTACAC
* *
13489077 CTGAATGCACATACGTGCCCCTGTATGTACTTCGGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACAC
* *
13489117 CTGAATGTACATATGTGCCCCTGTTTGTACTTCGGTACAC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACAC
* * * *
13489157 CTGAATGCACATACATGCCCATGTTTATACTTTGGTA-AC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACAC
13489196 CTTGAAT
1 C-TGAAT
13489203 CAAATAGTAT
Statistics
Matches: 141, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 5 0.04
40 134 0.95
41 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.33
Consensus pattern (40 bp):
CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACAC
Found at i:13492025 original size:14 final size:14
Alignment explanation
Indices: 13492006--13492037 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
13491996 TCCAATCACC
*
13492006 GGGCCAGTTTGGTT
1 GGGCCAATTTGGTT
13492020 GGGCCAATTTGGTT
1 GGGCCAATTTGGTT
13492034 GGGC
1 GGGC
13492038 TAAATGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.16, G:0.44, T:0.31
Consensus pattern (14 bp):
GGGCCAATTTGGTT
Found at i:13497150 original size:14 final size:14
Alignment explanation
Indices: 13497131--13497162 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
13497121 TCCAATCACC
13497131 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
13497145 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
13497159 GGGC
1 GGGC
13497163 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:13497376 original size:25 final size:25
Alignment explanation
Indices: 13497346--13497395 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
13497336 AATCCTTGAA
13497346 AACAGAATTAATGAATATTAAAGAT
1 AACAGAATTAATGAATATTAAAGAT
*
13497371 AACAGAATTAATGAATATTCAAGAT
1 AACAGAATTAATGAATATTAAAGAT
13497396 CCAAAATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.28
Consensus pattern (25 bp):
AACAGAATTAATGAATATTAAAGAT
Found at i:13503062 original size:28 final size:29
Alignment explanation
Indices: 13502989--13503073 Score: 109
Period size: 30 Copynumber: 2.9 Consensus size: 29
13502979 AGTACAGTGT
* *
13502989 AGGCCTTAGCCCATTACAGTAATAGTGTG
1 AGGCCTTAGCCCAATACAGTAATAGTATG
* *
13503018 AGGGCCTTAGCCAAATACAGTAACAGTATG
1 A-GGCCTTAGCCCAATACAGTAATAGTATG
*
13503048 A-GCCTTAGCCCAATACACTAATAGTA
1 AGGCCTTAGCCCAATACAGTAATAGTA
13503074 CAATGCAGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
28 22 0.46
29 1 0.02
30 25 0.52
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (29 bp):
AGGCCTTAGCCCAATACAGTAATAGTATG
Found at i:13503214 original size:26 final size:26
Alignment explanation
Indices: 13503178--13503251 Score: 139
Period size: 26 Copynumber: 2.8 Consensus size: 26
13503168 ACACCAATAT
*
13503178 CGCAGCAAAGCTGCCAGTAACAGTAA
1 CGCAACAAAGCTGCCAGTAACAGTAA
13503204 CGCAACAAAGCTGCCAGTAACAGTAA
1 CGCAACAAAGCTGCCAGTAACAGTAA
13503230 CGCAACAAAGCTGCCAGTAACA
1 CGCAACAAAGCTGCCAGTAACA
13503252 ATATATGTGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.41, C:0.28, G:0.20, T:0.11
Consensus pattern (26 bp):
CGCAACAAAGCTGCCAGTAACAGTAA
Found at i:13503457 original size:27 final size:25
Alignment explanation
Indices: 13503429--13503679 Score: 232
Period size: 27 Copynumber: 9.4 Consensus size: 25
13503419 GGGTATAACA
13503429 GTCATTTTACCCTTCGGGGATATTTC
1 GTCATTTTACCCTTCGGGG-TATTTC
*
13503455 AGTCATTTTACCCATCGAGGGTATTTC
1 -GTCATTTTACCCTTCG-GGGTATTTC
*
13503482 GGTTATTTTACCCTTCAGGGGTATTTC
1 -GTCATTTTACCCTTC-GGGGTATTTC
* **
13503509 GATCATTTTATCCTTCAAAGGTATTTC
1 G-TCATTTTACCCTTC-GGGGTATTTC
* *
13503536 AATCATTTTACCCTTCAAGGGTATTTC
1 -GTCATTTTACCCTTC-GGGGTATTTC
13503563 GTTCATTTTACCCTTCGAGGGTATTTTC
1 G-TCATTTTACCCTTCG-GGGTA-TTTC
* *
13503591 GTCATTTTACCATTCGAGGTATTTC
1 GTCATTTTACCCTTCGGGGTATTTC
* * * *
13503616 AGTCATTTTACCCTTTGTCGGTAGTCC
1 -GTCATTTTACCCTTCG-GGGTATTTC
13503643 GGTCATTTTACCCTTCGAGGGTATTTC
1 -GTCATTTTACCCTTCG-GGGTATTTC
13503670 GATCATTTTA
1 G-TCATTTTA
13503680 GGCCCATTAC
Statistics
Matches: 188, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
25 4 0.02
26 20 0.11
27 155 0.82
28 9 0.05
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (25 bp):
GTCATTTTACCCTTCGGGGTATTTC
Found at i:13503507 original size:54 final size:53
Alignment explanation
Indices: 13503429--13503679 Score: 274
Period size: 54 Copynumber: 4.7 Consensus size: 53
13503419 GGGTATAACA
*
13503429 GTCATTTTACCCTTCGGGGATATTTC-AGTCATTTTACCCATCGAGGGTATTTCG
1 GTCATTTTACCCTTCGGGG-TATTTCGA-TCATTTTACCCTTCGAGGGTATTTCG
* * * * *
13503483 GTTATTTTACCCTTCAGGGGTATTTCGATCATTTTATCCTTCAAAGGTATTTCA
1 GTCATTTTACCCTTC-GGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
* * *
13503537 ATCATTTTACCCTTCAAGGGTATTTCGTTCATTTTACCCTTCGAGGGTATTTTC-
1 GTCATTTTACCCTTC-GGGGTATTTCGATCATTTTACCCTTCGAGGGTA-TTTCG
* * * ** * *
13503591 GTCATTTTACCATTCGAGGTATTTC-AGTCATTTTACCCTTTGTCGGTAGTCCG
1 GTCATTTTACCCTTCGGGGTATTTCGA-TCATTTTACCCTTCGAGGGTATTTCG
13503644 GTCATTTTACCCTTCGAGGGTATTTCGATCATTTTA
1 GTCATTTTACCCTTCG-GGGTATTTCGATCATTTTA
13503680 GGCCCATTAC
Statistics
Matches: 165, Mismatches: 25, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
52 2 0.01
53 41 0.25
54 112 0.68
55 10 0.06
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (53 bp):
GTCATTTTACCCTTCGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
Found at i:13510610 original size:21 final size:22
Alignment explanation
Indices: 13510581--13510627 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
13510571 CAGAAGGAGT
*
13510581 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
13510603 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
13510624 GAGT
1 GAGT
13510628 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:13522079 original size:136 final size:135
Alignment explanation
Indices: 13521830--13522201 Score: 505
Period size: 136 Copynumber: 2.7 Consensus size: 135
13521820 GCCTACACAG
* * * *
13521830 ACAAGCTGTTGGTCGGAACGTAGTTACACAGTGCTACTCCACAAGTTGTCTAGTATCCACAACAA
1 ACAAGCT-ATGGTCGGAACGTAGCTACACAGTGCTACTCCACAAGCTGTCTAGTATCCGCAACAA
* * * *
13521895 ATGCTAAAACTCAGCCA-TCGGTAGGACATTCAAGACCAGCACCCGAAATATTGTAACTTGGGTC
65 ATGCCAAAACTCAGCCACT-GGTAGGACATTCAAGACCAGCACCAGAAATATGGTAACCTGGGTC
**
13521959 TGTTCAC
129 TACTCAC
*
13521966 ACAAGCTATGGGTCAGAACGTAGCTACACAGTGCTACTCCACAAGCTGTCTAGTATCCGCAACAA
1 ACAAGCTAT-GGTCGGAACGTAGCTACACAGTGCTACTCCACAAGCTGTCTAGTATCCGCAACAA
*
13522031 ATGCCAAAACTCAACCACTGGTAGGACATTCAAGACCAGCACCAGAAATATGGTAACCTGGGTCT
65 ATGCCAAAACTCAGCCACTGGTAGGACATTCAAGACCAGCACCAGAAATATGGTAACCTGGGTCT
13522096 ACTCAC
130 ACTCAC
* * * * * *
13522102 ACAAGTCGTA-GGTCGGAATGTAGCTACACGGTGCTGCTCCACAAGCTATCAAGTATCCGCAATA
1 ACAAG-C-TATGGTCGGAACGTAGCTACACAGTGCTACTCCACAAGCTGTCTAGTATCCGCAACA
* *
13522166 AATGCCAGAACTCAGCCACTGCTAGGACATTCAAGA
64 AATGCCAAAACTCAGCCACTGGTAGGACATTCAAGA
13522202 GCAACACCCG
Statistics
Matches: 210, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
135 1 0.00
136 205 0.98
137 2 0.01
138 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (135 bp):
ACAAGCTATGGTCGGAACGTAGCTACACAGTGCTACTCCACAAGCTGTCTAGTATCCGCAACAAA
TGCCAAAACTCAGCCACTGGTAGGACATTCAAGACCAGCACCAGAAATATGGTAACCTGGGTCTA
CTCAC
Found at i:13527432 original size:28 final size:29
Alignment explanation
Indices: 13527390--13527479 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 29
13527380 TGTGCTAAAC
13527390 GATGGTCAAAACCATCCC-TTCCATATTT
1 GATGGTCAAAACCATCCCTTTCCATATTT
* *
13527418 GATGGTCAAAGCCATCCCTTTTCATATTT
1 GATGGTCAAAACCATCCCTTTCCATATTT
* ** * * *
13527447 AATGGTCGTAACTATCCCTTTTCATATTC
1 GATGGTCAAAACCATCCCTTTCCATATTT
13527476 GATG
1 GATG
13527480 AGCTTCGATA
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
28 17 0.33
29 35 0.67
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (29 bp):
GATGGTCAAAACCATCCCTTTCCATATTT
Found at i:13539244 original size:113 final size:112
Alignment explanation
Indices: 13538958--13539304 Score: 312
Period size: 113 Copynumber: 3.1 Consensus size: 112
13538948 GATTCACAAA
* * * * * *
13538958 AAGCGCCGCAAAAAA-ATAAGGCCAACGACGCTGTTTACTAAGTTTTTGGGCCATTAACGGCGTT
1 AAGCGCCGCAAAAAACCTAAGGGCAACGACGCCGTTTTCTAAGTTTTTGGGCCTTTAGCGGCGTT
* * ** * * *
13539022 TTTATAAAAACGCTGCTAATGCTCGGGGGA-CTTT-GCGGCGATTTCTAAA
66 TTT-TAAAAGCGCCGCTAATGCTC---ATATCTTTAGCGGCGTTTTCTGAG
* * * ** ** *
13539071 AAGCGCCGCAAAAAACCTAA-TGCAAACGACGTC-ATTTCCGAGTTTTTGTCCCTTTTGCGGCGC
1 AAGCGCCGCAAAAAACCTAAGGGC-AACGACGCCGTTTTCTAAGTTTTTGGGCCTTTAGCGGCG-
*
13539134 TTTTTTAAAAGCGCCGGTAATGCTCATATCTTTAGCGGCGTTTTCTGAG
64 TTTTTTAAAAGCGCCGCTAATGCTCATATCTTTAGCGGCGTTTTCTGAG
**
13539183 AAGCGCCGCAAAAAACCTAAGGGCAACGACGCCGTTTTCTTTGTTTTTGGGCCTTTAGCGGCGTT
1 AAGCGCCGCAAAAAACCTAAGGGCAACGACGCCGTTTTCTAAGTTTTTGGGCCTTTAGCGGCGTT
* * * *
13539248 TTCTTAAAAGCGCCGCTAATGAT-TTGTTCTTTAGCGGCGTTTTTTTG-G
66 TT-TTAAAAGCGCCGCTAATGCTCAT-ATCTTTAGCGGCG-TTTTCTGAG
13539296 AAGCGCCGC
1 AAGCGCCGC
13539305 TAATAGTAAG
Statistics
Matches: 188, Mismatches: 36, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
110 1 0.01
111 4 0.02
112 45 0.24
113 117 0.62
114 21 0.11
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (112 bp):
AAGCGCCGCAAAAAACCTAAGGGCAACGACGCCGTTTTCTAAGTTTTTGGGCCTTTAGCGGCGTT
TTTTAAAAGCGCCGCTAATGCTCATATCTTTAGCGGCGTTTTCTGAG
Found at i:13539319 original size:14 final size:14
Alignment explanation
Indices: 13539300--13539327 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13539290 TTTTGGAAGC
13539300 GCCGCTAATAGTAA
1 GCCGCTAATAGTAA
13539314 GCCGCTAATAGTAA
1 GCCGCTAATAGTAA
13539328 TAAAAAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (14 bp):
GCCGCTAATAGTAA
Found at i:13539700 original size:18 final size:21
Alignment explanation
Indices: 13539654--13539702 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
13539644 TAGTTCGACT
13539654 AAATTAATATATAAATCAAAC
1 AAATTAATATATAAATCAAAC
* *
13539675 AAAGTAATATA-AAA-C-ACC
1 AAATTAATATATAAATCAAAC
13539693 AAATTAATAT
1 AAATTAATAT
13539703 CGTGATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 11 0.44
19 1 0.04
20 3 0.12
21 10 0.40
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATTAATATATAAATCAAAC
Found at i:13541166 original size:231 final size:230
Alignment explanation
Indices: 13540763--13541510 Score: 1115
Period size: 231 Copynumber: 3.2 Consensus size: 230
13540753 AGTTGTGAAG
*
13540763 AAAACGGCGCCATTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATGTTTTC
1 AAAACGGCGCCGTTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATGTTTTC
* *
13540828 TTTGTTAGGGAAGCGGCGTCGTTTTCCATTGTTATTAGTGGCGTTACACCCAAAACGCCGCAAAT
66 TTTGTTA-CGAAACGGCGTCGTTTTCCATTGTTATTAGTGGCGTTACACCCAAAACGCCGCAAAT
* * * * *
13540893 ATGTTTTAAAGATTACACGAGTTTGCATTAAACGACTGCGTTTGACATTATATTTAGTGTCACTT
130 ATATTTTAAAGATTACAGGAGTTTGCATTAAACGACTGCGTTTGACCTTATATTTAGTGGCGCTT
13540958 ATATATAAACGCCGCAAAATCGAAATGGTGTTACGA
195 ATATATAAACGCCGCAAAATCGAAATGGTGTTACGA
* *
13540994 AAAACGGCGCCGTTTTTTTATTACATTTAGTGGCGTTTTAGAGAAAACGCCGCAAGTATGTTTTC
1 AAAACGGCGCCGTTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATGTTTTC
* * * * *
13541059 TTTGTTACGTAAACGGCGTCGTTTTCCTTTGTTATTAGTGGCGTTATACTCGAAATGCCGCAAAT
66 TTTGTTACG-AAACGGCGTCGTTTTCCATTGTTATTAGTGGCGTTACACCCAAAACGCCGCAAAT
* *
13541124 AAATTTTAAAGATTACAGGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCGCTT
130 ATATTTTAAAGATTACAGGAGTTTGCATTAAACGACTGCGTTTGACCTTATATTTAGTGGCGCTT
* *
13541189 ATATATAAACGCCGCAAACTCGAAAATGGTGTTACAA
195 ATATATAAACGCCGCAAAATCG-AAATGGTGTTACGA
* * *
13541226 AAAATGGCACCGTTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATATTTTC
1 AAAACGGCGCCGTTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATGTTTTC
** * *
13541291 TTTGTTACAGAAACGGCGTCGTTTT-CAAGGATATTTGTGGCGTTACACCCAAAACGCCGCAAAT
66 TTTGTTAC-GAAACGGCGTCGTTTTCCATTGTTATTAGTGGCGTTACACCCAAAACGCCGCAAAT
* *
13541355 ATATTTTAAAGATTACAGGAGTTTGCTTTAAACGACTGCGTTTGACCTTATATTTGGTGGCGCTT
130 ATATTTTAAAGATTACAGGAGTTTGCATTAAACGACTGCGTTTGACCTTATATTTAGTGGCGCTT
13541420 ATATATAAACGCCGCAAAATCGAAATGGTGTTACGA
195 ATATATAAACGCCGCAAAATCGAAATGGTGTTACGA
* * *** *
13541456 AAAACGGCGCCATTTCCTTAGTTGGTTTTAGTGGCGCTTTT--ATTAAACGCCGCAA
1 AAAACGGCGCCGTTTTCTTA-TTACATTTAGTGGCG-TTTTAGATAAAACGCCGCAA
13541511 ATTTGCATTA
Statistics
Matches: 466, Mismatches: 46, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
230 43 0.09
231 322 0.69
232 100 0.21
233 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (230 bp):
AAAACGGCGCCGTTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATGTTTTC
TTTGTTACGAAACGGCGTCGTTTTCCATTGTTATTAGTGGCGTTACACCCAAAACGCCGCAAATA
TATTTTAAAGATTACAGGAGTTTGCATTAAACGACTGCGTTTGACCTTATATTTAGTGGCGCTTA
TATATAAACGCCGCAAAATCGAAATGGTGTTACGA
Found at i:13541860 original size:19 final size:19
Alignment explanation
Indices: 13541838--13541881 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
13541828 CAGACATCTC
*
13541838 CCCCAAATCCCTAAAATTT
1 CCCCAAATCCCTAAAAGTT
* * *
13541857 CCCCTAATTCCTAACAGTT
1 CCCCAAATCCCTAAAAGTT
13541876 CCCCAA
1 CCCCAA
13541882 CGTAGTCCAG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.32, C:0.41, G:0.02, T:0.25
Consensus pattern (19 bp):
CCCCAAATCCCTAAAAGTT
Found at i:13543036 original size:18 final size:18
Alignment explanation
Indices: 13542978--13543042 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
13542968 TACTCAAAAA
13542978 ATAAATAAATTAGTCTTT
1 ATAAATAAATTAGTCTTT
* ** **
13542996 ATAAAAAAAATTTA-AATAA
1 AT-AAATAAA-TTAGTCTTT
13543015 ATAAATAAATTAGTCTTT
1 ATAAATAAATTAGTCTTT
13543033 ATAAATAAAT
1 ATAAATAAAT
13543043 AGATAAAATT
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
17 3 0.09
18 19 0.56
19 9 0.26
20 3 0.09
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (18 bp):
ATAAATAAATTAGTCTTT
Found at i:13543532 original size:12 final size:13
Alignment explanation
Indices: 13543515--13543546 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
13543505 AACACTTTGC
13543515 TTAATTTTTAA-T
1 TTAATTTTTAAGT
13543527 TTAA-TTTTAAGT
1 TTAATTTTTAAGT
13543539 TTAATTTT
1 TTAATTTT
13543547 AGATAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.33
12 9 0.50
13 3 0.17
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (13 bp):
TTAATTTTTAAGT
Found at i:13543702 original size:37 final size:37
Alignment explanation
Indices: 13543661--13543769 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
13543651 TTAAAGTTAC
* *
13543661 AATTTCGAATTACATAACTTATACAATAATAAGGTAA
1 AATTTCGAATTACATAACTTATACAATATTAAGATAA
*
13543698 AATTTCTAATTACATAACTTATACAATATTAAGATAA
1 AATTTCGAATTACATAACTTATACAATATTAAGATAA
* *
13543735 AATTCCGAATTACATAACTTATATAATATTAAGAT
1 AATTTCGAATTACATAACTTATACAATATTAAGAT
13543770 TACTTTTATA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.36
Consensus pattern (37 bp):
AATTTCGAATTACATAACTTATACAATATTAAGATAA
Found at i:13543779 original size:20 final size:20
Alignment explanation
Indices: 13543751--13543789 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13543741 GAATTACATA
13543751 ACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATT
*
13543771 ACTTTTATAATATTAAGAT
1 ACTTATATAATATTAAGAT
13543790 CAAATTTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (20 bp):
ACTTATATAATATTAAGATT
Found at i:13543815 original size:9 final size:9
Alignment explanation
Indices: 13543801--13543936 Score: 101
Period size: 9 Copynumber: 16.0 Consensus size: 9
13543791 AAATTTCGAA
13543801 TTACATAAC
1 TTACATAAC
13543810 TTACATAA-
1 TTACATAAC
13543818 -TACATAACC
1 TTACATAA-C
* *
13543827 TT-CCTAGC
1 TTACATAAC
* *
13543835 TTACATTAT
1 TTACATAAC
*
13543844 TTAGATAA-
1 TTACATAAC
*
13543852 -TACATAGC
1 TTACATAAC
*
13543860 CTACATAAC
1 TTACATAAC
*
13543869 TTACATAAA
1 TTACATAAC
*
13543878 TTAAATAAC
1 TTACATAAC
13543887 TTACATAAC
1 TTACATAAC
*
13543896 TCACATAA-
1 TTACATAAC
*
13543904 -TACACAAC
1 TTACATAAC
13543912 TTACATAAC
1 TTACATAAC
13543921 TTACATAA-
1 TTACATAAC
13543929 -TACATAAC
1 TTACATAAC
13543937 CTTCCTATCA
Statistics
Matches: 98, Mismatches: 20, Indels: 19
0.72 0.15 0.14
Matches are distributed among these distances:
7 24 0.24
8 3 0.03
9 70 0.71
10 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:13543840 original size:34 final size:34
Alignment explanation
Indices: 13543801--13543960 Score: 115
Period size: 34 Copynumber: 4.4 Consensus size: 34
13543791 AAATTTCGAA
*
13543801 TTACATAACTTACATAATACATAACCTTCCTAGC
1 TTACATAACTTACATAATACATAACCTTCCTAAC
* * * * * *
13543835 TTACATTATTTAGATAATACATAGCCTACATAAC
1 TTACATAACTTACATAATACATAACCTTCCTAAC
* *
13543869 TTACATAAATTAAATAACTTACATAACTCACATAATACAC-AAC
1 TTACATAACTTACATAA--TACATAA--C-C-T--T-C-CTAAC
*
13543912 TTACATAACTTACATAATACATAACCTTCCTATC
1 TTACATAACTTACATAATACATAACCTTCCTAAC
*
13543946 ATATCATAACTTACA
1 TTA-CATAACTTACA
13543961 GAACTCATAT
Statistics
Matches: 97, Mismatches: 17, Indels: 23
0.71 0.12 0.17
Matches are distributed among these distances:
33 1 0.01
34 46 0.47
35 12 0.12
36 6 0.06
37 1 0.01
38 2 0.02
39 2 0.02
40 1 0.01
41 7 0.07
43 19 0.20
ACGTcount: A:0.43, C:0.23, G:0.02, T:0.33
Consensus pattern (34 bp):
TTACATAACTTACATAATACATAACCTTCCTAAC
Found at i:13543876 original size:25 final size:25
Alignment explanation
Indices: 13543802--13543936 Score: 121
Period size: 25 Copynumber: 5.3 Consensus size: 25
13543792 AATTTCGAAT
13543802 TACATAACTTACATAA--TACATAA
1 TACATAACTTACATAACTTACATAA
* * * * * *
13543825 CCTTCCTAGCTTACATTATTTAGATAA
1 --TACATAACTTACATAACTTACATAA
* *
13543852 TACATAGCCTACATAACTTACATAAA
1 TACATAACTTACATAACTTACAT-AA
* *
13543878 TTAAATAACTTACATAACTCACATAA
1 -TACATAACTTACATAACTTACATAA
*
13543904 TACACAACTTACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
13543929 TACATAAC
1 TACATAAC
13543937 CTTCCTATCA
Statistics
Matches: 87, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
25 58 0.67
26 4 0.05
27 25 0.29
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.31
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:13548564 original size:21 final size:21
Alignment explanation
Indices: 13548538--13548604 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
13548528 CTACAACTTA
* *
13548538 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
13548559 AAGCAGCGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
13548580 AAGCGGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
13548601 AAGC
1 AAGC
13548605 GGAGCAGAGC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.48, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:13548851 original size:14 final size:14
Alignment explanation
Indices: 13548832--13548865 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
13548822 ATTGCTATTG
13548832 GTTGCTTTTGAATT
1 GTTGCTTTTGAATT
13548846 GTTGCTTTTGAATT
1 GTTGCTTTTGAATT
*
13548860 TTTGCT
1 GTTGCT
13548866 ACAAGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.12, C:0.09, G:0.21, T:0.59
Consensus pattern (14 bp):
GTTGCTTTTGAATT
Found at i:13549233 original size:42 final size:43
Alignment explanation
Indices: 13549130--13549280 Score: 110
Period size: 42 Copynumber: 3.6 Consensus size: 43
13549120 ATAAAAGCGT
* * *
13549130 CGCTAAAGAACATGTTCTTTAGCGATC-TTTTAA-AAAAAACGC
1 CGCTAAAGAACATGGTCTTTAGCGA-CGTCTTAAGAATAAACGC
* ***** *
13549172 CACTATTTTTCATGTTCTTTAGCGACG-CTTAAGAATAAACGC
1 CGCTAAAGAACATGGTCTTTAGCGACGTCTTAAGAATAAACGC
* * ***** *
13549214 CGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCTAAGCGC
1 CGCTAAAGAACATGGTCTTTAGCGACGTCTTAAGAATAAACGC
13549257 CGCTAAAGAACATGGTCTTTAGCG
1 CGCTAAAGAACATGGTCTTTAGCG
13549281 GCGTTTTTTT
Statistics
Matches: 83, Mismatches: 23, Indels: 5
0.75 0.21 0.05
Matches are distributed among these distances:
41 5 0.06
42 46 0.55
43 32 0.39
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (43 bp):
CGCTAAAGAACATGGTCTTTAGCGACGTCTTAAGAATAAACGC
Found at i:13549412 original size:42 final size:42
Alignment explanation
Indices: 13549305--13549603 Score: 269
Period size: 42 Copynumber: 7.1 Consensus size: 42
13549295 TAGTGGCGTT
* * *
13549305 TTTGTATAAAAGCGCCACTAAAGAACATGTTCTTTAGCGGCG
1 TTTGTAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
* *
13549347 TTTGTAAAAAAAATGCCACTAAAGAACATGTTCTTTAGCGGCG
1 TTTGT-AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
* ** *
13549390 CTTGTAAAAAAACGCCGCTAAAGAACACATTCTTTAGAGGCG
1 TTTGTAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
* ** * *
13549432 CTTAG-GGAAAAACGCCGCTAAAGAACACGTTCTTTAGAGGCG
1 -TTTGTAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
* * *
13549474 ATTAG-GAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCG
1 -TTTGTAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
* **** * *
13549516 TTTTTCCTTAAGCGCCGCTAAAGAACCTGTTCTTTAGCGGCG
1 TTTGTAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
* **** * *
13549558 TTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCG
1 -TTTGTAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
13549601 TTT
1 TTT
13549604 TTGTTTGTAA
Statistics
Matches: 220, Mismatches: 33, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
41 2 0.01
42 141 0.64
43 77 0.35
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (42 bp):
TTTGTAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
Found at i:13549604 original size:43 final size:42
Alignment explanation
Indices: 13549486--13549605 Score: 186
Period size: 43 Copynumber: 2.8 Consensus size: 42
13549476 TAGGAAAAAA
13549486 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCCTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCCTTAAG
* * **
13549528 CGCCGCTAAAGAACCTGTTCTTTAGCGGCGTTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCCT-TAAG
*
13549571 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
13549606 GTTTGTAAAC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
42 34 0.48
43 37 0.52
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCCTTAAG
Found at i:13550003 original size:66 final size:66
Alignment explanation
Indices: 13549923--13550056 Score: 223
Period size: 66 Copynumber: 2.0 Consensus size: 66
13549913 CATGAATATA
* * * *
13549923 TAATTAAATGCATGTTTACGAGGAATATTTATGTTCAATTTATTTAATAAATAAAACTCAAAATT
1 TAATTAAATACATGTTAACAAGGAATATTTATATTCAATTTATTTAATAAATAAAACTCAAAATT
13549988 T
66 T
*
13549989 TAATTAAATACATGTTAACAAGGAATATTTATATTCAATTTATTTAATAAATGAAACTCAAAATT
1 TAATTAAATACATGTTAACAAGGAATATTTATATTCAATTTATTTAATAAATAAAACTCAAAATT
13550054 T
66 T
13550055 TA
1 TA
13550057 CTTCATGTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (66 bp):
TAATTAAATACATGTTAACAAGGAATATTTATATTCAATTTATTTAATAAATAAAACTCAAAATT
T
Found at i:13550646 original size:27 final size:27
Alignment explanation
Indices: 13550615--13550666 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
13550605 CTAAATTGGG
* * * *
13550615 GTTTTTCTTATTTTGTTCACTCTAATT
1 GTTTTTATTAATTTGGTCACCCTAATT
13550642 GTTTTTATTAATTTGGTCACCCTAA
1 GTTTTTATTAATTTGGTCACCCTAA
13550667 AAAAGAAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.19, C:0.15, G:0.10, T:0.56
Consensus pattern (27 bp):
GTTTTTATTAATTTGGTCACCCTAATT
Found at i:13577439 original size:10 final size:10
Alignment explanation
Indices: 13577426--13577473 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
13577416 CCTTTTATAC
*
13577426 TTTATTTAAT
1 TTTAATTAAT
13577436 TTTAATTAAT
1 TTTAATTAAT
*
13577446 AATTAATTAA-
1 -TTTAATTAAT
*
13577456 CTTAATTAAT
1 TTTAATTAAT
13577466 TTTAATTA
1 TTTAATTA
13577474 TTAAACTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 8 0.25
10 16 0.50
11 8 0.25
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTAATTAAT
Found at i:13580393 original size:20 final size:21
Alignment explanation
Indices: 13580368--13580406 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13580358 ATATACCATT
13580368 CAATAC-TTTACATTTCAATC
1 CAATACTTTTACATTTCAATC
*
13580388 CAATACTTTTCCATTTCAA
1 CAATACTTTTACATTTCAA
13580407 AACTAACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (21 bp):
CAATACTTTTACATTTCAATC
Found at i:13582742 original size:24 final size:24
Alignment explanation
Indices: 13582710--13582756 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
13582700 AGAATATTAC
13582710 GAACTGTATTTACAAAAATGTTGT
1 GAACTGTATTTACAAAAATGTTGT
*
13582734 GAACTGTATTTACATAAATGTTG
1 GAACTGTATTTACAAAAATGTTG
13582757 AAAACTACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (24 bp):
GAACTGTATTTACAAAAATGTTGT
Found at i:13582762 original size:24 final size:24
Alignment explanation
Indices: 13582711--13582762 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
13582701 GAATATTACG
**
13582711 AACTGTATTTACAAAAATGTTGTG
1 AACTGTATTTACAAAAATGTTGAA
*
13582735 AACTGTATTTACATAAATGTTGAA
1 AACTGTATTTACAAAAATGTTGAA
13582759 AACT
1 AACT
13582763 ACATTGGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (24 bp):
AACTGTATTTACAAAAATGTTGAA
Found at i:13582860 original size:24 final size:24
Alignment explanation
Indices: 13582827--13582916 Score: 74
Period size: 24 Copynumber: 3.8 Consensus size: 24
13582817 AGAATATTGC
*
13582827 GAACTGTATTTGCAGAAATGTTTT
1 GAACTATATTTGCAGAAATGTTTT
** *
13582851 GAACTATATTTGTTGACATGTTTT
1 GAACTATATTTGCAGAAATGTTTT
* * *
13582875 GAATTGTATTTGCATAAAT-TTTGT
1 GAACTATATTTGCAGAAATGTTT-T
* * *
13582899 AAACAATATTTACAGAAA
1 GAACTATATTTGCAGAAA
13582917 CGTCGCGAAC
Statistics
Matches: 49, Mismatches: 16, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
23 3 0.06
24 46 0.94
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (24 bp):
GAACTATATTTGCAGAAATGTTTT
Found at i:13583697 original size:13 final size:13
Alignment explanation
Indices: 13583679--13583705 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13583669 ATATGTGATA
13583679 TGTGTGAAAATTT
1 TGTGTGAAAATTT
13583692 TGTGTGAAAATTT
1 TGTGTGAAAATTT
13583705 T
1 T
13583706 ATCGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:13584921 original size:42 final size:43
Alignment explanation
Indices: 13584835--13584974 Score: 124
Period size: 42 Copynumber: 3.3 Consensus size: 43
13584825 AAACCACGTA
* * * * *
13584835 TGGGACATTGGTATCGATTTGA-GATTTAAGTATAAGACCATGTC
1 TGGGACATTGGCATCGATAT-ATGA-TTAAATGTAAGACCCTGTC
* ***
13584879 TGAGACATTGGCATCG-TATATGATTTCGTGTAAGACCCTGTC
1 TGGGACATTGGCATCGATATATGATTAAATGTAAGACCCTGTC
* * *
13584921 TGGGATAGTGGCATCGATATTTGATTAAATGTAAGA-CCTCGTC
1 TGGGACATTGGCATCGATATATGATTAAATGTAAGACCCT-GTC
13584964 TGGGACATTGG
1 TGGGACATTGG
13584975 AATTGTACGA
Statistics
Matches: 77, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
42 32 0.42
43 31 0.40
44 14 0.18
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (43 bp):
TGGGACATTGGCATCGATATATGATTAAATGTAAGACCCTGTC
Found at i:13586364 original size:40 final size:40
Alignment explanation
Indices: 13586280--13586463 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
13586270 TTGAATGCTG
* * * *
13586280 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
13586319 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
13586360 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
13586400 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
13586440 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
13586464 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:13586417 original size:80 final size:81
Alignment explanation
Indices: 13586280--13586460 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
13586270 TTGAATGCTG
* *
13586280 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
13586344 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
13586360 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
13586421 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
13586440 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
13586461 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:13594250 original size:40 final size:40
Alignment explanation
Indices: 13594166--13594386 Score: 342
Period size: 40 Copynumber: 5.5 Consensus size: 40
13594156 TTGAATGCTG
* * *
13594166 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTA-AGTGAAT-AT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGA-T-ACTAAT
*
13594205 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCCTTTGTGCGAGATACTAAT
13594246 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
13594286 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
13594326 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
13594366 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
13594387 ATTGTATGAG
Statistics
Matches: 171, Mismatches: 5, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 156 0.91
41 13 0.08
42 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
Found at i:13594379 original size:120 final size:120
Alignment explanation
Indices: 13594166--13594425 Score: 343
Period size: 120 Copynumber: 2.2 Consensus size: 120
13594156 TTGAATGCTG
*
13594166 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCGAAGTGAATATATCCGGATTAAGATCCGAAGGCCTTT
13594231 GTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
66 GTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
* * *
13594286 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCGAAG-TGAATATA-TCCGGATTAAGAT-CCGAAGGC
* ** *
13594347 CTTTGTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGG-CATTGTATGAGTTACT-AT
62 CTTTGTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
* *
13594404 AACCGGGCTATGTCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGC
13594426 ACTTGAACGA
Statistics
Matches: 124, Mismatches: 11, Indels: 12
0.84 0.07 0.08
Matches are distributed among these distances:
118 3 0.02
119 31 0.25
120 81 0.65
121 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCGAAGTGAATATATCCGGATTAAGATCCGAAGGCCTTT
GTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
Found at i:13596901 original size:16 final size:17
Alignment explanation
Indices: 13596880--13596912 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13596870 TTGTTTTGTT
13596880 ATATGTTCTG-TATATG
1 ATATGTTCTGATATATG
*
13596896 ATATGTTTTGATATATG
1 ATATGTTCTGATATATG
13596913 CTGGATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.27, C:0.03, G:0.18, T:0.52
Consensus pattern (17 bp):
ATATGTTCTGATATATG
Found at i:13599921 original size:16 final size:15
Alignment explanation
Indices: 13599885--13599917 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
13599875 AAAATTGCTC
13599885 TCTAAAAATAAAATT
1 TCTAAAAATAAAATT
13599900 TCTAAAAATAAAATT
1 TCTAAAAATAAAATT
13599915 TCT
1 TCT
13599918 TAAACTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (15 bp):
TCTAAAAATAAAATT
Found at i:13602141 original size:28 final size:29
Alignment explanation
Indices: 13602105--13602159 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
13602095 AGCCATTTTT
* *
13602105 ATTTTATTTATATATTAT-ATTTTTTTAA
1 ATTTAATTTATACATTATAATTTTTTTAA
* *
13602133 ATTTAATTTTTACATTCTAATTTTTTT
1 ATTTAATTTATACATTATAATTTTTTT
13602160 TCTTATTCTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 14 0.64
29 8 0.36
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (29 bp):
ATTTAATTTATACATTATAATTTTTTTAA
Found at i:13606017 original size:24 final size:25
Alignment explanation
Indices: 13605968--13606021 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
13605958 TTTCTTTTTA
*
13605968 TTATTTTTAATTATTATTTGTTGTT
1 TTATTTTTAATTATTATTTGTAGTT
*
13605993 TTATTTTT-CTTATTATTCT-TAGTT
1 TTATTTTTAATTATTATT-TGTAGTT
13606017 TTATT
1 TTATT
13606022 ATCATCATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.72
Consensus pattern (25 bp):
TTATTTTTAATTATTATTTGTAGTT
Found at i:13606023 original size:27 final size:25
Alignment explanation
Indices: 13605963--13606023 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
13605953 TCATATTTCT
13605963 TTTTATTATTTTTAATTATTATTTG
1 TTTTATTATTTTTAATTATTATTTG
*
13605988 TTGTT-TTATTTTT-CTTATTATTCTTAG
1 TT-TTATTATTTTTAATTATTA-T-TT-G
13606015 TTTTATTAT
1 TTTTATTAT
13606024 CATCATTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
24 6 0.20
25 11 0.37
26 6 0.20
27 7 0.23
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (25 bp):
TTTTATTATTTTTAATTATTATTTG
Found at i:13609295 original size:45 final size:45
Alignment explanation
Indices: 13609188--13609364 Score: 171
Period size: 45 Copynumber: 4.0 Consensus size: 45
13609178 AACGGTTACA
* * * **
13609188 CGGTGG-ATCAGCACATAAC-ACCACGC-TTATAATCAATTATATT
1 CGGTGGAATCAGCACATAGCAACCAC-CTTTATAGTCAATGATACC
* * ** * **
13609231 CGGTGAAATCAGCATATAGCAACCACCTTTATTTTCAGTGATTTC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAGTCAATGATACC
* * *
13609276 TGGTGGAGTCAGCACATAGCAACCACCTTTATAGTCAATGGTACC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAGTCAATGATACC
* *
13609321 CGGTGGAATCAGTACATAGCAACCACCTTTATAATCAATGATAC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAGTCAATGATAC
13609365 TCAGTACACG
Statistics
Matches: 107, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
43 5 0.05
44 12 0.11
45 90 0.84
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTTATAGTCAATGATACC
Found at i:13617228 original size:29 final size:28
Alignment explanation
Indices: 13617192--13617269 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
13617182 TCATGAGATT
13617192 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
13617222 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
13617249 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
13617270 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:13617487 original size:174 final size:174
Alignment explanation
Indices: 13617222--13617549 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
13617212 AAATTGTACA
*
13617222 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
13617287 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
13617352 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
13617396 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
13617461 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
13617526 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
13617550 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:13621511 original size:23 final size:22
Alignment explanation
Indices: 13621468--13621511 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
13621458 TTTCAAGTCA
13621468 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
13621491 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
13621512 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:13621739 original size:51 final size:51
Alignment explanation
Indices: 13621675--13621875 Score: 212
Period size: 51 Copynumber: 4.0 Consensus size: 51
13621665 ATTAATGATA
* * *
13621675 CCGGTTCACATAGTAGCCTGCACATAGTACTGCACATGTGACCATCACTAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
* * *
13621726 CCGATACACATAGTAGCTTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTAT
** * *
13621777 CCGGTATGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
* * * * *
13621827 CTGGTACACGTAGTAACCTACGCATAGTACTACACACGTGACCATCACT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
13621876 TTCACTTTCA
Statistics
Matches: 122, Mismatches: 22, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
49 4 0.03
50 38 0.31
51 77 0.63
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:13621891 original size:101 final size:102
Alignment explanation
Indices: 13621679--13621867 Score: 231
Period size: 101 Copynumber: 1.9 Consensus size: 102
13621669 ATGATACCGG
* * * *
13621679 TTCACATAGTAGCCTGCACATAGTACTGCACATGTGACCATCACTATCCGATACACATAGTAGCT
1 TTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACATAGTAACC
* *
13621744 TGCACATAGTACTACACACGTGATCGAAGCTATCCGGT
66 TACACATAGTACTACACACGTGATCCAAGCTATCC-GT
* * * * *
13621782 AT-GCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAAC
1 TTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACATAGTAAC
*
13621844 CTACGCATAGTACTACACACGTGA
65 CTACACATAGTACTACACACGTGA
13621868 CCATCACTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
101 35 0.47
102 34 0.46
103 5 0.07
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (102 bp):
TTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACATAGTAACC
TACACATAGTACTACACACGTGATCCAAGCTATCCGT
Found at i:13641087 original size:21 final size:21
Alignment explanation
Indices: 13641061--13641107 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13641051 GTTGTGGCTA
*
13641061 CATCTGATTTTGGTATGGATG
1 CATCTGACTTTGGTATGGATG
* * *
13641082 CATCTGGCTTTGTTGTGGATG
1 CATCTGACTTTGGTATGGATG
13641103 CATCT
1 CATCT
13641108 AAGTGTGTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.15, G:0.28, T:0.43
Consensus pattern (21 bp):
CATCTGACTTTGGTATGGATG
Found at i:13651267 original size:27 final size:27
Alignment explanation
Indices: 13651097--13651266 Score: 214
Period size: 27 Copynumber: 6.3 Consensus size: 27
13651087 GGGTATAACA
* * **
13651097 GTCATTTCATCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
13651124 GTCATTTTACCCTATAGGGATATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
**
13651151 GTCATTTTACCCTATGAAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
13651178 GTCATTTTACCCTACGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
13651205 GTCATTTTATCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
13651232 GTCATTTTAACCTATAGAGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGGTATTTCG
13651260 GTCATTT
1 GTCATTT
13651267 ATCGACCTCT
Statistics
Matches: 123, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
27 106 0.86
28 17 0.14
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:13651269 original size:54 final size:54
Alignment explanation
Indices: 13651097--13651266 Score: 241
Period size: 54 Copynumber: 3.1 Consensus size: 54
13651087 GGGTATAACA
* * *
13651097 GTCATTTCATCCTATGGGGGTATTTTAGTCATTTTACCCTATAGGGATATTTCG
1 GTCATTTTATCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCG
* ** * **
13651151 GTCATTTTACCCTATGAAGGTATTTCGGTCATTTTACCCTACGGGGGTATTTCG
1 GTCATTTTATCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCG
*
13651205 GTCATTTTATCCTATGGGGGTATTTTGGTCATTTTAACCTATAGAGGGTATTTCG
1 GTCATTTTATCCTATGGGGGTATTTTGGTCATTTTACCCTATAG-GGGTATTTCG
13651260 GTCATTT
1 GTCATTT
13651267 ATCGACCTCT
Statistics
Matches: 99, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
54 82 0.83
55 17 0.17
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.42
Consensus pattern (54 bp):
GTCATTTTATCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCG
Found at i:13654543 original size:15 final size:15
Alignment explanation
Indices: 13654525--13654563 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
13654515 GCGTGTTACT
13654525 CAGCCATGTGTGACA
1 CAGCCATGTGTGACA
*
13654540 CAG-C-TATGTGACA
1 CAGCCATGTGTGACA
13654553 CAGCCATGTGT
1 CAGCCATGTGT
13654564 CCCCTGTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
13 11 0.55
14 2 0.10
15 7 0.35
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (15 bp):
CAGCCATGTGTGACA
Found at i:13662342 original size:14 final size:13
Alignment explanation
Indices: 13662323--13662360 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
13662313 GGGACTGTAT
13662323 ATGTTAATCAATTA
1 ATGTTAA-CAATTA
13662337 ATGTTAA-AATTA
1 ATGTTAACAATTA
*
13662349 AAGTTAACAATT
1 ATGTTAACAATT
13662361 TGGTGATAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 11 0.50
13 4 0.18
14 7 0.32
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.39
Consensus pattern (13 bp):
ATGTTAACAATTA
Found at i:13662469 original size:14 final size:14
Alignment explanation
Indices: 13662450--13662483 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13662440 AATTTAGTCT
13662450 AAATGAAAAGTATG
1 AAATGAAAAGTATG
*
13662464 AAATGAAATGTATG
1 AAATGAAAAGTATG
*
13662478 AGATGA
1 AAATGA
13662484 GTTTAGCAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (14 bp):
AAATGAAAAGTATG
Found at i:13665282 original size:19 final size:19
Alignment explanation
Indices: 13665248--13665375 Score: 76
Period size: 18 Copynumber: 6.8 Consensus size: 19
13665238 AATGATAAAA
*
13665248 AATAAAAATAAATAAAAATT
1 AATAAAAAT-ATTAAAAATT
* * *
13665268 ACTGAAATTATT-AAAATAT
1 AATAAAAATATTAAAAAT-T
13665287 AATAAAAATATTAAAAATT
1 AATAAAAATATTAAAAATT
13665306 AGA-AAAAAT-TATAAAAA-T
1 A-ATAAAAATAT-TAAAAATT
*
13665324 ACTAAAAAT-TTATAAAATT
1 AATAAAAATATTA-AAAATT
*
13665343 TAT-AAAAT-TTATAAAA-T
1 AATAAAAATATTA-AAAATT
13665360 ATATAAAAATA-TAAAA
1 A-ATAAAAATATTAAAA
13665376 TTTTATAAAG
Statistics
Matches: 87, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
17 3 0.03
18 37 0.43
19 35 0.40
20 12 0.14
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
AATAAAAATATTAAAAATT
Done.