Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015381.1 Kokia drynarioides strain JFW-HI SEQ_130428, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2291099
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Warning! 587 characters in sequence are not A, C, G, or T
File 3 of 8
Found at i:718759 original size:95 final size:95
Alignment explanation
Indices: 718609--718901 Score: 367
Period size: 96 Copynumber: 3.1 Consensus size: 95
718599 GGGTCAGATG
* * * *
718609 AAAATAATGAAGCAGAGCTCAATGTCCCTAAGGTTATAGTGGAGTGGAGTAAAACTTCAAATCTC
1 AAAATAATGAAGCAGAGCTCAACGTCCCTGAGATTAAAGTGGAGTGGAGT-AAACTTCAAATCTC
* * * *
718674 ATTTTCCTGATGAGGTATAGAGAATTGGGTC
65 ATATTCTTGGTGAGGTATAGAGAAGTGGGTC
* * * * *
718705 AAAATAATGAAGCAAAGC-CAACGTCCTTGAGATTACAGTAGAGTGGAGTGAAACTTCATATC-C
1 AAAATAATGAAGCAGAGCTCAACGTCCCTGAGATTAAAGTGGAGTGGAGT-AAACTTCAAATCTC
718768 TATATTCTTGGTGAGGTATAGAGAAGTGGGTC
65 -ATATTCTTGGTGAGGTATAGAGAAGTGGGTC
*
718800 AAAATAATGAAGTAGAGCTCAACGTCCCTGAGGA-TAAAGTGGAGTGGAGTAAGACTTCAAATCT
1 AAAATAATGAAGCAGAGCTCAACGTCCCTGA-GATTAAAGTGGAGTGGAGTAA-ACTTCAAATCT
* * *
718864 GATCTTCTTGGTAAGGTATAGAGAAGTGGGTC
64 CATATTCTTGGTGAGGTATAGAGAAGTGGGTC
718896 AAAATA
1 AAAATA
718902 GTGTGTTGAA
Statistics
Matches: 170, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
94 1 0.01
95 81 0.48
96 86 0.51
97 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.26
Consensus pattern (95 bp):
AAAATAATGAAGCAGAGCTCAACGTCCCTGAGATTAAAGTGGAGTGGAGTAAACTTCAAATCTCA
TATTCTTGGTGAGGTATAGAGAAGTGGGTC
Found at i:719474 original size:347 final size:344
Alignment explanation
Indices: 718798--719590 Score: 930
Period size: 347 Copynumber: 2.3 Consensus size: 344
718788 GAGAAGTGGG
*
718798 TCAAAATAATGAAGTAGAGCTCAACGTCCCTGAGGAT-A-AAGTGGAGTGGAGTA-AGACTTCAA
1 TCAAAATAACGAAGTAGAGCTCAACGTCCCTGAGGATAATAAGTGGAGTGGAG-AGAGACTTCAA
* * * * * * *
718860 AT-CTGATCTTCTTGGTAAGGTATAGAGAAGTGGGTCAAAATAGTGTGTTGAATCAAAACGACGA
65 ATCCT-ATCTTCTTGGTGAGGTACAGAGAAGTGGGTCAAAACAGTATGTTGAATAAAAACAACAA
** *
718924 AGTAGAGCTCAACGTCCCTAAGGATACAATGGAGTGGAGTGAGACTTCAAATCCATCTTTCGGGT
129 ACCAGAGCTCAACGTCCCTAAGGATACAATGGAGTGGAATGAGACTTCAAATCCATCTTTCGGGT
* * * * * *
718989 GAGATACAGATAAGTGGATAAAAAATAATGTGTTGAATCAAAACGATGAAGTAGAGCTCAATGTC
194 GAGATACAGAGAAGTGGATAAAAAATAATGTGTTAAATCAAAACAACGAAGCAGAGCTCAACGTC
* * *
719054 CCTGAGGATCCATTGGAGTGGAGTGAGACTTCAAATCCCATCTTACAGGTGAGGTACAGAGAAGT
259 CCTGAGGATACAGTGAAGTGGAGTGAGACTTCAAATCCCATCTTACAGGTGAGGTACAGAGAAGT
* *
719119 GAGTCAAAACAGTGTGTTGAA
324 GAGTCAAAACAGTGGGGTGAA
* * * *
719140 TCAAAATAACGAAGTCGAGCTCAACGTCTCTAAGGATACATCGAAGTGGAGTGGAGAGAAACTTC
1 TCAAAATAACGAAGTAGAGCTCAACGTCCCTGAGGATA-AT--AAGTGGAGTGGAGAGAGACTTC
719205 AAATCCTATCTT-TCTGGTGAGGTACAGAGAAGTGGGTCAAAACAGTATGTTGAATAAAAACAAC
63 AAATCCTATCTTCT-TGGTGAGGTACAGAGAAGTGGGTCAAAACAGTATGTTGAATAAAAACAAC
* * ** *
719269 AAACCCGAGCTCAACGTCCCTGAGGATACGGTGGAGTGGAATGAGACTTTAAATCCCATC-TTCT
127 AAACCAGAGCTCAACGTCCCTAAGGATACAATGGAGTGGAATGAGACTTCAAAT-CCATCTTTC-
* * * * *
719333 TGGTGAGGA-ACAGAGAAGTGTG-TCAATACAGT-A-G-GTTAAATCAAAGCAACGAAGCCGAGC
190 GGGTGA-GATACAGAGAAGTG-GAT-AA-AAAATAATGTGTTAAATCAAAACAACGAAGCAGAGC
* * * * *
719393 TTAACGTTCCTGAGGATATAGTGAAGTGGAGTGAGACTTCAAATTCCATCTT-CTTGGTGAGGTA
251 TCAACGTCCCTGAGGATACAGTGAAGTGGAGTGAGACTTCAAATCCCATCTTAC-AGGTGAGGTA
* *
719457 CAGAGAAGTGGGTCAAAATAGTGGGGTGAA
315 CAGAGAAGTGAGTCAAAACAGTGGGGTGAA
* * * *
719487 TCAAAACAACGAAGTTGAGCTCAACGTCCCTGAGGA-AAT-AGTAGAGTGGAGTGAGACTTCAAA
1 TCAAAATAACGAAGTAGAGCTCAACGTCCCTGAGGATAATAAGTGGAGTGGAGAGAGACTTCAAA
* *
719550 TCCCATCTTCTTGGTGAGGTACAGAGAAGTGGGTTAAAACA
66 TCCTATCTTCTTGGTGAGGTACAGAGAAGTGGGTCAAAACA
719591 AATAGCGAAT
Statistics
Matches: 383, Mismatches: 52, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
342 91 0.24
343 1 0.00
344 1 0.00
345 2 0.01
346 4 0.01
347 251 0.66
348 24 0.06
349 6 0.02
350 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (344 bp):
TCAAAATAACGAAGTAGAGCTCAACGTCCCTGAGGATAATAAGTGGAGTGGAGAGAGACTTCAAA
TCCTATCTTCTTGGTGAGGTACAGAGAAGTGGGTCAAAACAGTATGTTGAATAAAAACAACAAAC
CAGAGCTCAACGTCCCTAAGGATACAATGGAGTGGAATGAGACTTCAAATCCATCTTTCGGGTGA
GATACAGAGAAGTGGATAAAAAATAATGTGTTAAATCAAAACAACGAAGCAGAGCTCAACGTCCC
TGAGGATACAGTGAAGTGGAGTGAGACTTCAAATCCCATCTTACAGGTGAGGTACAGAGAAGTGA
GTCAAAACAGTGGGGTGAA
Found at i:719617 original size:114 final size:114
Alignment explanation
Indices: 718798--719590 Score: 869
Period size: 114 Copynumber: 6.9 Consensus size: 114
718788 GAGAAGTGGG
* * * *
718798 TCAAAATAATGAAGTAGAGCTCAACGTCCCTGAGGATAAAGTGGAGTGGAGTAAGACTTCAAATC
1 TCAAAACAACGAAGTAGAGCTCAACGTCCCTGAGGATACAGTGGAGTGGAGTGAGACTTCAAATC
** * * * *
718863 TGATCTTCTTGGTAAGGTATAGAGAAGTGGGTCAAAATAGTGTGTTGAA
66 CCATCTTCTTGGTGAGGTACAGAGAAGTGGGTCAAAACAGTGAGTTGAA
* * *
718912 TCAAAACGACGAAGTAGAGCTCAACGTCCCTAAGGATACAATGGAGTGGAGTGAGACTTCAAAT-
1 TCAAAACAACGAAGTAGAGCTCAACGTCCCTGAGGATACAGTGGAGTGGAGTGAGACTTCAAATC
* * * * * * * *
718976 CCATCTT-TCGGGTGAGATACAGATAAGTGGATAAAAAATAATGTGTTGAA
66 CCATCTTCT-TGGTGAGGTACAGAGAAGTGGGT-CAAAACAGTGAGTTGAA
* * * * *
719026 TCAAAACGATGAAGTAGAGCTCAATGTCCCTGAGGATCCATTGGAGTGGAGTGAGACTTCAAATC
1 TCAAAACAACGAAGTAGAGCTCAACGTCCCTGAGGATACAGTGGAGTGGAGTGAGACTTCAAATC
* * *
719091 CCATCTTAC-AGGTGAGGTACAGAGAAGTGAGTCAAAACAGTGTGTTGAA
66 CCATCTT-CTTGGTGAGGTACAGAGAAGTGGGTCAAAACAGTGAGTTGAA
* * * * * *
719140 TCAAAATAACGAAGTCGAGCTCAACGTCTCTAAGGATACATCGAAGTGGAGTGGAGAGAAACTTC
1 TCAAAACAACGAAGTAGAGCTCAACGTCCCTGAGGAT--A-C--AGTGGAGTGGAGTGAGACTTC
*
719205 AAATCCTATCTT-TCTGGTGAGGTACAGAGAAGTGGGTCAAAACAGT-ATGTTGAA
61 AAATCCCATCTTCT-TGGTGAGGTACAGAGAAGTGGGTCAAAACAGTGA-GTTGAA
* * *** * * *
719259 TAAAAACAACAAACCCGAGCTCAACGTCCCTGAGGATACGGTGGAGTGGAATGAGACTTTAAATC
1 TCAAAACAACGAAGTAGAGCTCAACGTCCCTGAGGATACAGTGGAGTGGAGTGAGACTTCAAATC
* * * *
719324 CCATCTTCTTGGTGAGGAACAGAGAAGTGTGTCAATACAGT-AGGTTAAA
66 CCATCTTCTTGGTGAGGTACAGAGAAGTGGGTCAAAACAGTGA-GTTGAA
* ** * * * * *
719373 TCAAAGCAACGAAGCCGAGCTTAACGTTCCTGAGGATATAGTGAAGTGGAGTGAGACTTCAAATT
1 TCAAAACAACGAAGTAGAGCTCAACGTCCCTGAGGATACAGTGGAGTGGAGTGAGACTTCAAATC
* * *
719438 CCATCTTCTTGGTGAGGTACAGAGAAGTGGGTCAAAATAGTGGGGTGAA
66 CCATCTTCTTGGTGAGGTACAGAGAAGTGGGTCAAAACAGTGAGTTGAA
* * * *
719487 TCAAAACAACGAAGTTGAGCTCAACGTCCCTGAGGAAATAGTAGAGTGGAGTGAGACTTCAAATC
1 TCAAAACAACGAAGTAGAGCTCAACGTCCCTGAGGATACAGTGGAGTGGAGTGAGACTTCAAATC
*
719552 CCATCTTCTTGGTGAGGTACAGAGAAGTGGGTTAAAACA
66 CCATCTTCTTGGTGAGGTACAGAGAAGTGGGTCAAAACA
719591 AATAGCGAAT
Statistics
Matches: 571, Mismatches: 93, Indels: 30
0.82 0.13 0.04
Matches are distributed among these distances:
112 1 0.00
113 22 0.04
114 424 0.74
115 26 0.05
116 1 0.00
117 2 0.00
119 95 0.17
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (114 bp):
TCAAAACAACGAAGTAGAGCTCAACGTCCCTGAGGATACAGTGGAGTGGAGTGAGACTTCAAATC
CCATCTTCTTGGTGAGGTACAGAGAAGTGGGTCAAAACAGTGAGTTGAA
Found at i:727794 original size:20 final size:19
Alignment explanation
Indices: 727767--727883 Score: 72
Period size: 20 Copynumber: 6.3 Consensus size: 19
727757 TAAGAGTTAA
727767 TTTTAATTTTTTATATTAT
1 TTTTAATTTTTTATATTAT
727786 TTATTAA--TTTTATATTAT
1 TT-TTAATTTTTTATATTAT
**
727804 TTTT-ATAATTTA-ATTAT
1 TTTTAATTTTTTATATTAT
*
727821 TTTTAATAATATTTA-ATTA-
1 TTTTAAT--TTTTTATATTAT
*
727840 TTTTATATTATTTT-TATAAT
1 TTTTA-ATT-TTTTATATTAT
727860 TTAATTAATTTTTTA-A-TAT
1 TT--TTAATTTTTTATATTAT
727879 TTTTA
1 TTTTA
727884 TGTGAATAGT
Statistics
Matches: 80, Mismatches: 5, Indels: 28
0.71 0.04 0.25
Matches are distributed among these distances:
16 1 0.01
17 14 0.17
18 20 0.25
19 17 0.21
20 22 0.28
21 3 0.04
22 3 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTAATTTTTTATATTAT
Found at i:727796 original size:18 final size:18
Alignment explanation
Indices: 727775--727871 Score: 74
Period size: 18 Copynumber: 5.2 Consensus size: 18
727765 AATTTTAATT
727775 TTTTATATTATTTATTAA
1 TTTTATATTATTTATTAA
*
727793 TTTTATATTATTTTTATAA
1 TTTTATATTATTTAT-TAA
* *
727812 TTTAATTATT-TTTAATAA
1 TTTTA-TATTATTTATTAA
*
727830 TATTTA-ATTATTTTATATTA
1 T-TTTATATTA-TTTAT-TAA
*
727850 TTTT-TATAATTTAATTAA
1 TTTTATATTATTT-ATTAA
727868 TTTT
1 TTTT
727872 TTAATATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
17 3 0.05
18 27 0.44
19 25 0.40
20 7 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTATATTATTTATTAA
Found at i:727825 original size:10 final size:10
Alignment explanation
Indices: 727812--727883 Score: 55
Period size: 10 Copynumber: 7.4 Consensus size: 10
727802 ATTTTTATAA
727812 TTTAATTATT
1 TTTAATTATT
* *
727822 TTTAATAATA
1 TTTAATTATT
727832 TTTAATTA-T
1 TTTAATTATT
727841 TTTATATTATT
1 TTTA-ATTATT
*
727852 TTT-A-TA-A
1 TTTAATTATT
727859 TTTAATTAATTT
1 TTTAATT-A-TT
727871 TTTAA-TATT
1 TTTAATTATT
727880 TTTA
1 TTTA
727884 TGTGAATAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 15
0.70 0.09 0.21
Matches are distributed among these distances:
7 3 0.06
8 3 0.06
9 12 0.24
10 21 0.43
11 5 0.10
12 5 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTAATTATT
Found at i:727834 original size:47 final size:47
Alignment explanation
Indices: 727769--727880 Score: 167
Period size: 47 Copynumber: 2.4 Consensus size: 47
727759 AGAGTTAATT
*
727769 TTAATTTTTTATATTATTT-ATTAATTTTATATTATTTTTATAATTTAA
1 TTAA-TTTTTATAATATTTAATT-ATTTTATATTATTTTTATAATTTAA
727817 TT-ATTTTTAATAATATTTAATTATTTTATATTATTTTTATAATTTAA
1 TTAATTTTT-ATAATATTTAATTATTTTATATTATTTTTATAATTTAA
727864 TTAATTTTT-TAATATTT
1 TTAATTTTTATAATATTT
727881 TTATGTGAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
46 13 0.22
47 36 0.60
48 11 0.18
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (47 bp):
TTAATTTTTATAATATTTAATTATTTTATATTATTTTTATAATTTAA
Found at i:727884 original size:28 final size:29
Alignment explanation
Indices: 727812--727884 Score: 87
Period size: 28 Copynumber: 2.5 Consensus size: 29
727802 ATTTTTATAA
727812 TTTAATTATTTTTAATAATATTTAATTATTT
1 TTTAA-TATTTTT-ATAATATTTAATTATTT
* *
727843 TATATTATTTTTAT-A-ATTTAATTAATTT
1 TTTAATATTTTTATAATATTTAATT-ATTT
727871 TTTAATATTTTTAT
1 TTTAATATTTTTAT
727885 GTGAATAGTC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 8 0.22
28 17 0.46
29 2 0.05
30 7 0.19
31 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (29 bp):
TTTAATATTTTTATAATATTTAATTATTT
Found at i:729219 original size:15 final size:15
Alignment explanation
Indices: 729181--729220 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
729171 GGCTCATCAT
729181 CACCACCCACGCAAG
1 CACCACCCACGCAAG
** *
729196 CACTGCCCATGCAAG
1 CACCACCCACGCAAG
729211 CACCACCCAC
1 CACCACCCAC
729221 ATAACAAGTT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.30, C:0.53, G:0.12, T:0.05
Consensus pattern (15 bp):
CACCACCCACGCAAG
Found at i:729809 original size:59 final size:59
Alignment explanation
Indices: 729715--729841 Score: 182
Period size: 59 Copynumber: 2.2 Consensus size: 59
729705 ACATGTATTA
* * *
729715 ATTATTTTTATATTGTTTCATTTAATAAAAACGAAGTTAATTTGAATATTTTTGTACAC
1 ATTATTTTTATATTGTTTAATTTAATAAAAACGAAGTTAATTTGAATACTTTTATACAC
* * * *
729774 ATTATTTTTATATTGTTTAATTTAATAAAAGCGAAGTTCATTTGAGTACTTTTATATAC
1 ATTATTTTTATATTGTTTAATTTAATAAAAACGAAGTTAATTTGAATACTTTTATACAC
*
729833 ATTAATTTT
1 ATTATTTTT
729842 GGGTAAAGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (59 bp):
ATTATTTTTATATTGTTTAATTTAATAAAAACGAAGTTAATTTGAATACTTTTATACAC
Found at i:730192 original size:152 final size:154
Alignment explanation
Indices: 730020--730483 Score: 556
Period size: 176 Copynumber: 2.9 Consensus size: 154
730010 ATTATTAATT
* * * * *
730020 AAAATTATAATGACTCAAAGACAGGAGGAAGCATATGTTAAAATTATGATTTAATTAAAAATATA
1 AAAATTATGATGACTAAAAGACAAGAGGAAGTATATGTTAAAATTATGATTTAATTAAAAATAAA
*
730085 CAATAAATATTTATAAGAATAATTAAATAATTTGAATAAAAATAAAACAAAAAATAAAAAATAAA
66 CAATAAATATTTATAAAAATAATTAAATAATTTGAATAAAAATAAAACAAAAAATAAAAAATAAA
730150 TTTAATT-ATTTT-AATTTGAATA
131 TTTAATTAATTTTCAATTTGAATA
* *
730172 AAAATTATGATGAGTAAAAGACAAGAGGAAGTATATGTTAAAATTATGATTTAAATAAAAATAAA
1 AAAATTATGATGACTAAAAGACAAGAGGAAGTATATGTTAAAATTATGATTTAATTAAAAATAAA
* * *
730237 CAATAAATATTTATAAAAATAATTAATAAATATTTATAAAAATAATTAAATAATTTGAATAAAAA
66 CAATAAATATTTATAAAAATAA-T--TAAATAATT-T-----GAA-TAAA-AA--T-AA-AACAA
* *
730302 TAAAACATAAAAAATAAAAATAAATTTAATTCTTTCAATTTGAATA
116 -AAA--ATAAAAAAT-AAATTTAA-TTAA-T-TTTCAATTTGAATA
*
730348 AAAATTATGATGACTAAAAGACAAAAGGAAGTATATGTTAAAATTATGATTTAATTAAAAATAAA
1 AAAATTATGATGACTAAAAGACAAGAGGAAGTATATGTTAAAATTATGATTTAATTAAAAATAAA
* *
730413 TAATAAATAATTATAAAAATAATTAAATAATTTGAATAAAAATAAAACAGAAAAAT-AAAAATAA
66 CAATAAATATTTATAAAAATAATTAAATAATTTGAATAAAAATAAAACA-AAAAATAAAAAATAA
730477 ATTTAAT
130 ATTTAAT
730484 CCTTTCAATT
Statistics
Matches: 264, Mismatches: 23, Indels: 46
0.79 0.07 0.14
Matches are distributed among these distances:
152 79 0.30
153 1 0.00
155 8 0.03
156 2 0.01
157 6 0.02
158 6 0.02
159 2 0.01
161 8 0.03
162 7 0.03
163 3 0.01
165 3 0.01
166 6 0.02
167 6 0.02
168 3 0.01
170 9 0.03
171 6 0.02
172 3 0.01
173 9 0.03
174 1 0.00
175 4 0.02
176 92 0.35
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.31
Consensus pattern (154 bp):
AAAATTATGATGACTAAAAGACAAGAGGAAGTATATGTTAAAATTATGATTTAATTAAAAATAAA
CAATAAATATTTATAAAAATAATTAAATAATTTGAATAAAAATAAAACAAAAAATAAAAAATAAA
TTTAATTAATTTTCAATTTGAATA
Found at i:730267 original size:175 final size:176
Alignment explanation
Indices: 730086--730438 Score: 611
Period size: 176 Copynumber: 2.0 Consensus size: 176
730076 AAAAATATAC
*
730086 AATAAATATTTATAAGAATAATTAAATAATTTGAATAAAAATAAAAC--AAAAAATAAAAAATAA
1 AATAAATATTTATAAAAATAATTAAATAATTTGAATAAAAATAAAACATAAAAAAT-AAAAATAA
* * *
730149 ATTTAATTATTTTAATTTGAATAAAAATTATGATGAGTAAAAGACAAGAGGAAGTATATGTTAAA
65 ATTTAATTATTTCAATTTGAATAAAAATTATGATGACTAAAAGACAAAAGGAAGTATATGTTAAA
*
730214 ATTATGATTTAAATAAAAATAAACAATAAATATTTATAAAAATAATT
130 ATTATGATTTAAATAAAAATAAACAATAAATAATTATAAAAATAATT
730261 AATAAATATTTATAAAAATAATTAAATAATTTGAATAAAAATAAAACATAAAAAATAAAAATAAA
1 AATAAATATTTATAAAAATAATTAAATAATTTGAATAAAAATAAAACATAAAAAATAAAAATAAA
*
730326 TTTAATTCTTTCAATTTGAATAAAAATTATGATGACTAAAAGACAAAAGGAAGTATATGTTAAAA
66 TTTAATTATTTCAATTTGAATAAAAATTATGATGACTAAAAGACAAAAGGAAGTATATGTTAAAA
* *
730391 TTATGATTTAATTAAAAATAAATAATAAATAATTATAAAAATAATT
131 TTATGATTTAAATAAAAATAAACAATAAATAATTATAAAAATAATT
730437 AA
1 AA
730439 ATAATTTGAA
Statistics
Matches: 168, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
175 46 0.27
176 115 0.68
177 7 0.04
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (176 bp):
AATAAATATTTATAAAAATAATTAAATAATTTGAATAAAAATAAAACATAAAAAATAAAAATAAA
TTTAATTATTTCAATTTGAATAAAAATTATGATGACTAAAAGACAAAAGGAAGTATATGTTAAAA
TTATGATTTAAATAAAAATAAACAATAAATAATTATAAAAATAATT
Found at i:730282 original size:23 final size:23
Alignment explanation
Indices: 730226--730285 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
730216 TATGATTTAA
**
730226 ATAAAAATAAACAATAAATATTT
1 ATAAAAATAATTAATAAATATTT
730249 ATAAAAATAATTAATAAATATTT
1 ATAAAAATAATTAATAAATATTT
730272 ATAAAAATAATTAA
1 ATAAAAATAATTAA
730286 ATAATTTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
ATAAAAATAATTAATAAATATTT
Found at i:730298 original size:23 final size:23
Alignment explanation
Indices: 730225--730304 Score: 92
Period size: 23 Copynumber: 3.5 Consensus size: 23
730215 TTATGATTTA
**
730225 AATAAAAATAAACAATAAATATT
1 AATAAAAATAATTAATAAATATT
*
730248 TATAAAAATAATTAATAAATATT
1 AATAAAAATAATTAATAAATATT
*
730271 TATAAAAATAATTAA-ATAAT-TT
1 AATAAAAATAATTAATA-AATATT
730293 GAATAAAAATAA
1 -AATAAAAATAA
730305 AACATAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.06
23 48 0.94
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (23 bp):
AATAAAAATAATTAATAAATATT
Found at i:730429 original size:23 final size:23
Alignment explanation
Indices: 730396--730458 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
730386 TAAAATTATG
730396 ATTTAATTAAAAATAAATAATAAATA
1 ATTTAA-TAAAAATAAAT--TAAATA
730422 A-TT-ATAAAAAT-AATTAAATA
1 ATTTAATAAAAATAAATTAAATA
730442 ATTTGAATAAAAATAAA
1 ATTT-AATAAAAATAAA
730459 ACAGAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
20 7 0.21
21 2 0.06
22 3 0.09
23 15 0.45
24 3 0.09
25 2 0.06
26 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
ATTTAATAAAAATAAATTAAATA
Found at i:730544 original size:14 final size:14
Alignment explanation
Indices: 730510--730558 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
730500 GAGTGTTTTT
730510 ACCTAAAATATATAAA
1 ACCT-AAATAT-TAAA
730526 A--TAAATATTAAA
1 ACCTAAATATTAAA
730538 ACCTAAAT-TTAAAA
1 ACCTAAATATT-AAA
730552 ACCTAAA
1 ACCTAAA
730559 CCTTAATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 5 0.17
13 8 0.27
14 16 0.53
16 1 0.03
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (14 bp):
ACCTAAATATTAAA
Found at i:730573 original size:14 final size:15
Alignment explanation
Indices: 730556--730584 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
730546 TTAAAAACCT
730556 AAACCTT-AATTTAA
1 AAACCTTAAATTTAA
730570 AAACCTTAAATTTAA
1 AAACCTTAAATTTAA
730585 TTAAAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (15 bp):
AAACCTTAAATTTAA
Found at i:730590 original size:19 final size:20
Alignment explanation
Indices: 730536--730575 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
730526 ATAAATATTA
*
730536 AAACCTAAATTTAAAAACCT
1 AAACCTTAATTTAAAAACCT
730556 AAACCTTAATTTAAAAACCT
1 AAACCTTAATTTAAAAACCT
730576 TAAATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.28
Consensus pattern (20 bp):
AAACCTTAATTTAAAAACCT
Found at i:737717 original size:18 final size:20
Alignment explanation
Indices: 737695--737744 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 20
737685 TGAATGCAAT
737695 TAAATATTATTAT-ATTTGA
1 TAAATATTATTATAATTTGA
* *
737714 -AAATATAAATATAATTTGA
1 TAAATATTATTATAATTTGA
*
737733 TAAATGTTATTA
1 TAAATATTATTA
737745 ATATGTGTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
18 10 0.42
19 6 0.25
20 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (20 bp):
TAAATATTATTATAATTTGA
Found at i:740131 original size:16 final size:16
Alignment explanation
Indices: 740112--740144 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
740102 AACTTCACAT
740112 ATTTTCATATGATATA
1 ATTTTCATATGATATA
740128 ATTTTCATATGATATA
1 ATTTTCATATGATATA
740144 A
1 A
740145 ATTACATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (16 bp):
ATTTTCATATGATATA
Found at i:740152 original size:16 final size:16
Alignment explanation
Indices: 740117--740152 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
740107 CACATATTTT
* *
740117 CATATGATATAATTTT
1 CATATGATATAAATTA
740133 CATATGATATAAATTA
1 CATATGATATAAATTA
740149 CATA
1 CATA
740153 ATATAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (16 bp):
CATATGATATAAATTA
Found at i:743135 original size:24 final size:24
Alignment explanation
Indices: 743108--743178 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
743098 TTGGTCTTTA
743108 AAAAGCATGCCAAAACCATGAACG
1 AAAAGCATGCCAAAACCATGAACG
** *
743132 AAAATTA-GGCAAATA--AT--A-G
1 AAAAGCATGCCAAA-ACCATGAACG
743151 AAAAGCATGCCAAAACCATGAACG
1 AAAAGCATGCCAAAACCATGAACG
743175 AAAA
1 AAAA
743179 TTAGGCAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 7 0.21
20 6 0.18
21 2 0.06
22 2 0.06
23 6 0.18
24 11 0.32
ACGTcount: A:0.55, C:0.18, G:0.15, T:0.11
Consensus pattern (24 bp):
AAAAGCATGCCAAAACCATGAACG
Found at i:743159 original size:43 final size:43
Alignment explanation
Indices: 743108--743203 Score: 183
Period size: 43 Copynumber: 2.2 Consensus size: 43
743098 TTGGTCTTTA
743108 AAAAGCATGCCAAAACCATGAACGAAAATTAGGCAAATAATAG
1 AAAAGCATGCCAAAACCATGAACGAAAATTAGGCAAATAATAG
*
743151 AAAAGCATGCCAAAACCATGAACGAAAATTAGGCAAATAATAT
1 AAAAGCATGCCAAAACCATGAACGAAAATTAGGCAAATAATAG
743194 AAAAGCATGC
1 AAAAGCATGC
743204 TATGACTTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.53, C:0.17, G:0.16, T:0.15
Consensus pattern (43 bp):
AAAAGCATGCCAAAACCATGAACGAAAATTAGGCAAATAATAG
Found at i:744284 original size:27 final size:27
Alignment explanation
Indices: 744246--744302 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
744236 GGCAAATGAG
*
744246 GAGAATGAACCTTTTTATGATTACGAA
1 GAGAATGAACCTGTTTATGATTACGAA
744273 GAGAATGAACCTGTTTATGATTACGAA
1 GAGAATGAACCTGTTTATGATTACGAA
744300 GAG
1 GAG
744303 GAAGAAGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.30
Consensus pattern (27 bp):
GAGAATGAACCTGTTTATGATTACGAA
Found at i:746458 original size:29 final size:29
Alignment explanation
Indices: 746424--746640 Score: 94
Period size: 29 Copynumber: 7.3 Consensus size: 29
746414 GATTAAATGC
*
746424 AATTTTTGGATGCTCGAGGGTAAAACGGT
1 AATTTTTGGAGGCTCGAGGGTAAAACGGT
* * *
746453 AGTTTTTGGAGGTTCGGGGGTAAAACGGT
1 AATTTTTGGAGGCTCGAGGGTAAAACGGT
* ** * * * *
746482 AATTTTTAGACACTTGGGGGAAAAATGGT
1 AATTTTTGGAGGCTCGAGGGTAAAACGGT
* * * *
746511 GATTTTTGGAAAGTTCGGGAGGGTAAAATGGT
1 AATTTTTGG-AGGCTC--GAGGGTAAAACGGT
* * *** * ** *
746543 AAGTTTTAGAAATTTGAGGGTCAAAAATGA
1 AATTTTTGGAGGCTCGAGGGT-AAAACGGT
*** *
746573 AATTTTTGGACATTCGAGGGTAAAATGGT
1 AATTTTTGGAGGCTCGAGGGTAAAACGGT
*** *
746602 AATTTTTGGATATTCGAGGGTAAAATC-AT
1 AATTTTTGGAGGCTCGAGGGTAAAA-CGGT
746631 AATTTTTGGA
1 AATTTTTGGA
746641 AAGTTCACAG
Statistics
Matches: 145, Mismatches: 38, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
29 99 0.68
30 24 0.17
31 4 0.03
32 18 0.12
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.33
Consensus pattern (29 bp):
AATTTTTGGAGGCTCGAGGGTAAAACGGT
Found at i:746599 original size:59 final size:58
Alignment explanation
Indices: 746455--746805 Score: 236
Period size: 59 Copynumber: 5.9 Consensus size: 58
746445 AAAACGGTAG
* * * * * * **
746455 TTTTTGGAGGTTCGGGGGTAAAACGGTAATTTTTAGACACTTG-GGGGAAAAATGGTGA
1 TTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAATTTGAGGGTAAAAAT-GAAA
*
746513 TTTTTGGAAAGTTCGGGAGGGTAAAATGGTAAGTTTTAGAAATTTGAGGGTCAAAAATGAAA
1 TTTTTGG-AAGTTC--GAGGGTAAAATGGTAATTTTTAGAAATTTGAGGGT-AAAAATGAAA
* * * *
746575 TTTTTGGACA-TTCGAGGGTAAAATGGTAATTTTTGGATATTCGAGGGT-AAAATCATAA
1 TTTTTGGA-AGTTCGAGGGTAAAATGGTAATTTTTAGAAATTTGAGGGTAAAAATGA-AA
** * * *
746633 TTTTTGGAAAGTTC-ACAGTCAAAAAT-G-AAATTTTAGGAAATTCGAGGGTAAAAATGTAA
1 TTTTTGG-AAGTTCGAGGGT--AAAATGGTAATTTTTA-GAAATTTGAGGGTAAAAATGAAA
* * * * *
746692 TTCTTGTGAAGTT-TAGAGGTCAAAAT-ATAATTTTTTGAAAGTTT-AGGGTTAAAAATGAAT
1 TTTTTG-GAAGTTCGAG-GGT-AAAATGGTAATTTTTAGAAA-TTTGAGGG-TAAAAATGAAA
* * * *
746752 TTTTTAGAAGTTCGAGGGTAAAATGGCAATTTTTGGAAAGTTTG-GGGTCAAAAT
1 TTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAA-TTTGAGGGTAAAAAT
746806 ATTATTTTTG
Statistics
Matches: 233, Mismatches: 38, Indels: 44
0.74 0.12 0.14
Matches are distributed among these distances:
57 6 0.03
58 37 0.16
59 106 0.45
60 36 0.15
61 29 0.12
62 13 0.06
63 6 0.03
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (58 bp):
TTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAATTTGAGGGTAAAAATGAAA
Found at i:746685 original size:29 final size:28
Alignment explanation
Indices: 746512--746790 Score: 161
Period size: 29 Copynumber: 9.4 Consensus size: 28
746502 AAAAATGGTG
*
746512 ATTTTTGGAAAGTTCGGGAGGGTAAAATGGTA
1 ATTTTTGGAAA-TTC--GAGGGTAAAAT-GAA
* * *
746544 AGTTTTAGAAATTTGAGGGTCAAAAATGAA
1 ATTTTTGGAAATTCGAGGGT--AAAATGAA
* *
746574 ATTTTTGGACATTCGAGGGTAAAATGGTA
1 ATTTTTGGAAATTCGAGGGTAAAAT-GAA
* *
746603 ATTTTTGGATATTCGAGGGTAAAATCATA
1 ATTTTTGGAAATTCGAGGGTAAAATGA-A
**
746632 ATTTTTGGAAAGTTC-ACAGTCAAAAATGAA
1 ATTTTTGGAAA-TTCGAGGGT--AAAATGAA
* *
746662 ATTTTAGGAAATTCGAGGGTAAAAATGTA
1 ATTTTTGGAAATTCGAGGGT-AAAATGAA
* * *
746691 ATTCTTGTGAAGTT-TAGAGGTCAAAAT-ATA
1 ATTTTTG-GAAATTCGAG-GGT-AAAATGA-A
* *
746721 ATTTTTTGAAAGTT-TAGGGTTAAAAATGAA
1 ATTTTTGGAAA-TTCGAGGG-T-AAAATGAA
* * * *
746751 TTTTTTAGAAGTTCGAGGGTAAAATGGCA
1 ATTTTTGGAAATTCGAGGGTAAAAT-GAA
746780 ATTTTTGGAAA
1 ATTTTTGGAAA
746791 GTTTGGGGTC
Statistics
Matches: 193, Mismatches: 38, Indels: 35
0.73 0.14 0.13
Matches are distributed among these distances:
28 10 0.05
29 82 0.42
30 78 0.40
31 14 0.07
32 9 0.05
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (28 bp):
ATTTTTGGAAATTCGAGGGTAAAATGAA
Found at i:746717 original size:30 final size:29
Alignment explanation
Indices: 746677--746827 Score: 89
Period size: 29 Copynumber: 5.1 Consensus size: 29
746667 AGGAAATTCG
* *
746677 AGGGTAAAAATGTAATTCTTGTG-AAGTTT
1 AGGGTCAAAATATAATT-TTGTGAAAGTTT
*
746706 AGAGGTCAAAATATAATTTTTTGAAAGTTT
1 AG-GGTCAAAATATAATTTTGTGAAAGTTT
* * *
746736 AGGGTTAAAA-ATGAATTTT-TTAGAAGTTCG
1 AGGGTCAAAATAT-AATTTTGTGA-AAGTT-T
**
746766 AGGGT-AAAATGGCAATTTT-TGGAAAGTTT
1 AGGGTCAAAAT-ATAATTTTGT-GAAAGTTT
* * *
746795 GGGGTCAAAATATTATTTT-TGAACAGTTC
1 AGGGTCAAAATATAATTTTGTGAA-AGTTT
746824 AGGG
1 AGGG
746828 ACCTTCTGGG
Statistics
Matches: 96, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
28 7 0.07
29 45 0.47
30 43 0.45
31 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (29 bp):
AGGGTCAAAATATAATTTTGTGAAAGTTT
Found at i:748736 original size:17 final size:17
Alignment explanation
Indices: 748709--748783 Score: 96
Period size: 17 Copynumber: 4.4 Consensus size: 17
748699 GTTTTTATTC
*
748709 ATTTAAGTTTAAAATAA
1 ATTTAAATTTAAAATAA
* *
748726 TTTTAAATTTAAAACAA
1 ATTTAAATTTAAAATAA
748743 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
* **
748760 ACTTAACCTTAAAATAA
1 ATTTAAATTTAAAATAA
748777 ATTTAAA
1 ATTTAAA
748784 AAGATGGGTT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 48 1.00
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:750076 original size:59 final size:59
Alignment explanation
Indices: 750003--750362 Score: 469
Period size: 59 Copynumber: 6.1 Consensus size: 59
749993 TTTTAAGAGT
* *
750003 TTTAAGGTCGAAAATGGGATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTGGAAGG
1 TTTAGGGTCAAAAATGGGATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTGGAAGG
* *
750062 TTTAGGGTCAAAAATGGGATTTTTTGAAATTTAGGGGT-AAATGGTAATTTTTGGAAGG
1 TTTAGGGTCAAAAATGGGATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTGGAAGG
*
750120 TTTGGGGTCAAAAATGGGATTTTTGGAAGTTT-GAGGGTAAAATGGTAATTTTTGGAAGG
1 TTTAGGGTCAAAAATGGGATTTTTGGAAGTTTAG-GGGTAAAATGGTAATTTTTGGAAGG
* * * * *
750179 -TTCGAGGTCAAAAATGGGATTTTTGGATGTTTGGGGGTAAAATGGTATTTTTTGAAAGG
1 TTTAG-GGTCAAAAATGGGATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTGGAAGG
** * *
750238 TTCGGGGTCAAAAATGGGATTTTTGGAAG-TTCGAGGGTAAAATTAG-AATTTTTGGAAGG
1 TTTAGGGTCAAAAATGGGATTTTTGGAAGTTTAG-GGGTAAAA-TGGTAATTTTTGGAAGG
* ** * * *
750297 GTCGGGGTTAAAAATGAGATTTTTGGAAGTTTTGGGGTAAAATGGTAATTTTTGGAAGG
1 TTTAGGGTCAAAAATGGGATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTGGAAGG
750356 TTTAGGG
1 TTTAGGG
750363 ACCTCCGAGG
Statistics
Matches: 266, Mismatches: 26, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
57 1 0.00
58 61 0.23
59 196 0.74
60 8 0.03
ACGTcount: A:0.29, C:0.03, G:0.33, T:0.36
Consensus pattern (59 bp):
TTTAGGGTCAAAAATGGGATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTGGAAGG
Found at i:750319 original size:30 final size:30
Alignment explanation
Indices: 750013--750357 Score: 250
Period size: 29 Copynumber: 11.7 Consensus size: 30
750003 TTTAAGGTCG
* *
750013 AAAATGGGATTTTTGGAAGTTTAGGGG-T-
1 AAAATGGGATTTTTGGAAGGTTCGGGGTTA
* ** *
750041 AAAATGGTAATTTTTGGAAGGTTTAGGGTCA
1 AAAATGG-GATTTTTGGAAGGTTCGGGGTTA
* ** *
750072 AAAATGGGATTTTTTGAAATTTAGGGG-T-
1 AAAATGGGATTTTTGGAAGGTTCGGGGTTA
* * *
750100 -AAATGGTAATTTTTGGAAGGTTTGGGGTCA
1 AAAATGG-GATTTTTGGAAGGTTCGGGGTTA
*
750130 AAAATGGGATTTTTGGAA-GTTTGAGGG-T-
1 AAAATGGGATTTTTGGAAGGTTCG-GGGTTA
* * *
750158 AAAATGGTAATTTTTGGAAGGTTCGAGGTCA
1 AAAATGG-GATTTTTGGAAGGTTCGGGGTTA
* * *
750189 AAAATGGGATTTTTGG-ATGTTTGGGGGT-
1 AAAATGGGATTTTTGGAAGGTTCGGGGTTA
* * *
750217 AAAATGGTATTTTTTGAAAGGTTCGGGGTCA
1 AAAATGGGA-TTTTTGGAAGGTTCGGGGTTA
750248 AAAATGGGATTTTTGGAA-GTTCGAGGG-TA
1 AAAATGGGATTTTTGGAAGGTTCG-GGGTTA
* * * *
750277 AAATTAGAATTTTTGGAAGGGTCGGGGTTA
1 AAAATGGGATTTTTGGAAGGTTCGGGGTTA
* * *
750307 AAAATGAGATTTTTGGAAGTTTTGGGG-T-
1 AAAATGGGATTTTTGGAAGGTTCGGGGTTA
*
750335 AAAATGGTAATTTTTGGAAGGTT
1 AAAATGG-GATTTTTGGAAGGTT
750358 TAGGGACCTC
Statistics
Matches: 245, Mismatches: 53, Indels: 37
0.73 0.16 0.11
Matches are distributed among these distances:
27 6 0.02
28 43 0.18
29 84 0.34
30 84 0.34
31 28 0.11
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (30 bp):
AAAATGGGATTTTTGGAAGGTTCGGGGTTA
Found at i:752248 original size:17 final size:16
Alignment explanation
Indices: 752228--752300 Score: 67
Period size: 17 Copynumber: 4.3 Consensus size: 16
752218 AAATAAATTT
752228 TAAATTTAAATTTATAA
1 TAAATTTAAATTTA-AA
*
752245 TAAATTTAAATTTCAAC
1 TAAATTTAAATTT-AAA
*
752262 CAAATTTAAATTTAGAA
1 TAAATTTAAATTTA-AA
*
752279 T-AATCTTAATTTTAAAA
1 TAAAT-TTAAATTT-AAA
752296 TAAAT
1 TAAAT
752301 CTAAGTTGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
16 4 0.09
17 37 0.80
18 5 0.11
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.42
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:752964 original size:18 final size:18
Alignment explanation
Indices: 752941--753003 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 18
752931 TAAGTTAGAA
*
752941 CATATTGGCTTATTTGAG
1 CATACTGGCTTATTTGAG
* *
752959 CATATTGGCTCATTTGAG
1 CATACTGGCTTATTTGAG
** *
752977 CATACTAACTTGTTTGAG
1 CATACTGGCTTATTTGAG
752995 CATACTGGC
1 CATACTGGC
753004 GCGTAAGAGC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (18 bp):
CATACTGGCTTATTTGAG
Found at i:759898 original size:18 final size:18
Alignment explanation
Indices: 759875--759919 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
759865 TAAGTTAAAA
**
759875 CATACTGGCTCGTTTGAG
1 CATACTGGCTCGTAAGAG
*
759893 CATACTAGCTCGTAAGAG
1 CATACTGGCTCGTAAGAG
759911 CATTACTGG
1 CA-TACTGG
759920 TTGGATGACC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (18 bp):
CATACTGGCTCGTAAGAG
Found at i:761945 original size:14 final size:14
Alignment explanation
Indices: 761926--761974 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
761916 CTCTAATAAA
761926 GCGAGCATGGCCTT
1 GCGAGCATGGCCTT
* ***
761940 GCGAGCTTGGAAAAT
1 GCGAGCATGG-CCTT
761955 GCGAGCATGGCCTT
1 GCGAGCATGGCCTT
761969 GCGAGC
1 GCGAGC
761975 TTGGAAAATG
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.20, C:0.24, G:0.37, T:0.18
Consensus pattern (14 bp):
GCGAGCATGGCCTT
Found at i:761945 original size:29 final size:28
Alignment explanation
Indices: 761910--761990 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 28
761900 GCACGAGTAG
761910 TGCGAGCTCT-AATAAAGCGAGCATGGCCT
1 TGCGAGCT-TGAA-AAAGCGAGCATGGCCT
*
761939 TGCGAGCTTGGAAAATGCGAGCATGGCCT
1 TGCGAGCTT-GAAAAAGCGAGCATGGCCT
*
761968 TGCGAGCTTGGAAAATGCGAGCA
1 TGCGAGCTT-GAAAAAGCGAGCA
761991 CTGGTGTTAC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
28 1 0.02
29 46 0.94
30 2 0.04
ACGTcount: A:0.27, C:0.21, G:0.32, T:0.20
Consensus pattern (28 bp):
TGCGAGCTTGAAAAAGCGAGCATGGCCT
Found at i:761959 original size:15 final size:15
Alignment explanation
Indices: 761939--761989 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
761929 AGCATGGCCT
761939 TGCGAGCTTGGAAAA
1 TGCGAGCTTGGAAAA
* ***
761954 TGCGAGCATGG-CCT
1 TGCGAGCTTGGAAAA
761968 TGCGAGCTTGGAAAA
1 TGCGAGCTTGGAAAA
761983 TGCGAGC
1 TGCGAGC
761990 ACTGGTGTTA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.25, C:0.20, G:0.35, T:0.20
Consensus pattern (15 bp):
TGCGAGCTTGGAAAA
Found at i:765516 original size:15 final size:17
Alignment explanation
Indices: 765493--765543 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
765483 CTTCTTCATT
*
765493 TTCTTTTCC-CTT-TTC
1 TTCTCTTCCTCTTCTTC
765508 TTCTCTTCCTTCTTCTTC
1 TTCTCTTCC-TCTTCTTC
*
765526 TTCTCTTTTCTCTTCTTC
1 TTCTC-TTCCTCTTCTTC
765544 CTATTCAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 8 0.27
17 3 0.10
18 16 0.53
19 3 0.10
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (17 bp):
TTCTCTTCCTCTTCTTC
Found at i:769814 original size:33 final size:33
Alignment explanation
Indices: 769772--769837 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
769762 AACATGTAGC
769772 AATACGAGTAGGGATTAGTTCATTTTTATCATT
1 AATACGAGTAGGGATTAGTTCATTTTTATCATT
769805 AATACGAGTAGGGATTAGTTCATTTTTATCATT
1 AATACGAGTAGGGATTAGTTCATTTTTATCATT
769838 GCTTACCATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (33 bp):
AATACGAGTAGGGATTAGTTCATTTTTATCATT
Found at i:775735 original size:16 final size:16
Alignment explanation
Indices: 775714--775744 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
775704 AAGTGCTTCA
775714 ATTCATTTCATTTCTC
1 ATTCATTTCATTTCTC
775730 ATTCATTTCATTTCT
1 ATTCATTTCATTTCT
775745 TCTATCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTCATTTCATTTCTC
Found at i:778341 original size:468 final size:468
Alignment explanation
Indices: 777465--778401 Score: 1703
Period size: 468 Copynumber: 2.0 Consensus size: 468
777455 TCGCTCAACT
* *
777465 CTATCCAATACAAAGGTGTTCCGTATTTCCTACCGTATAATGCCTCAAATGGTACCATTTTAGTA
1 CTATCCAATACAAAGGTGTTCAGTATTTCCTACCGTATAATGCCTCAAATGGTACCATTTTAATA
* *
777530 CTGGACTAATAGCTTTTATTATATGCAAACTCCACCAATGGTAGATATTTCTCCCAACTACCCTC
66 CTGGACTAATAGCTTTTATTAAATGCAAACTCCACCAACGGTAGATATTTCTCCCAACTACCCTC
* * *
777595 AAATTCAAGTATATAGCATTGTAACATATCTTTTAGAATTTGTATCACACACTCTAACTGTCCAT
131 AAATTCAAGTATACAACATTGTAACATATCTTTTAGAATCTGTATCACACACTCTAACTGTCCAT
*
777660 CTATTTGCGAATGATAAGTAGTGCTGAAATTCAGCATGGTTTCCAAAGCTTCTTGTAACTTACCT
196 CTATTTGCGAATGATAAGTAGTGCTGAAATTCAGCATGGTTTCCAAAGCTTCATGTAACTTACCT
* *
777725 CAGAACCTTGAGGTAAAACATGAATCTCTGTCAGAGATAATAGACGTTGGTACTCCATGTAGTCG
261 CAGAACCTTGAGGTAAAACATGAATCTCTATCAGAGATAATAGACGCTGGTACTCCATGTAGTCG
777790 TACGATCTCTGACACATATAACTCAGCCAACCTCTCAAGTGGATAATCTACCCGGACAAAAATGA
326 TACGATCTCTGACACATATAACTCAGCCAACCTCTCAAGTGGATAATCTACCCGGACAAAAATGA
*
777855 AGTGAGCTGACTTTGTCAATATGTCTACAATTACCCAGATCTAATCTTTCTTCTTTGGTGTTACC
391 AGTGAGCTGACTTTGTCAATATGTCTACAATTACCCAGATCGAATCTTTCTTCTTTGGTGTTACC
777920 GGAAGACCTATGA
456 GGAAGACCTATGA
*
777933 CTATCCAATGCAAAGGTGTTCAGTATTTCCTACCGTATAATGCCTCAAATGGTACCATTTTAATA
1 CTATCCAATACAAAGGTGTTCAGTATTTCCTACCGTATAATGCCTCAAATGGTACCATTTTAATA
*
777998 CTGGACTAATAGCTTTTATTAAATGCAAACTCCACCAACGGTAGATATTTCTCCCAACTACCCTT
66 CTGGACTAATAGCTTTTATTAAATGCAAACTCCACCAACGGTAGATATTTCTCCCAACTACCCTC
778063 AAATTCAAGTATACAACATTGTAACATATCTTTTAGAATCTGTATCACACACTCTAACTGTCCAT
131 AAATTCAAGTATACAACATTGTAACATATCTTTTAGAATCTGTATCACACACTCTAACTGTCCAT
*
778128 CTGTTTGCGAATGATAAGTAGTGCTGAAATTCAGCATGGTTTCCAAAGCTTCATGTAACTTACCT
196 CTATTTGCGAATGATAAGTAGTGCTGAAATTCAGCATGGTTTCCAAAGCTTCATGTAACTTACCT
778193 CAGAACCTTGAGGTAAAACATGAATCTCTATCAGAGATAATAGACGCTGGTACTCCATGTAGTCG
261 CAGAACCTTGAGGTAAAACATGAATCTCTATCAGAGATAATAGACGCTGGTACTCCATGTAGTCG
* *
778258 TACGATCTCTGACACATATAACTCAGTCAACCTCTCAAGTGGATAATCTACCTGGACAAAAATGA
326 TACGATCTCTGACACATATAACTCAGCCAACCTCTCAAGTGGATAATCTACCCGGACAAAAATGA
* * *
778323 AGTGAGCTGACTTTGTCAATCTGTCTACAATTACCCAGATCGGATCTTTCTTCTTTGGTGTTACT
391 AGTGAGCTGACTTTGTCAATATGTCTACAATTACCCAGATCGAATCTTTCTTCTTTGGTGTTACC
778388 GGAAGACCTATGA
456 GGAAGACCTATGA
778401 C
1 C
778402 AAAATTAATA
Statistics
Matches: 450, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
468 450 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (468 bp):
CTATCCAATACAAAGGTGTTCAGTATTTCCTACCGTATAATGCCTCAAATGGTACCATTTTAATA
CTGGACTAATAGCTTTTATTAAATGCAAACTCCACCAACGGTAGATATTTCTCCCAACTACCCTC
AAATTCAAGTATACAACATTGTAACATATCTTTTAGAATCTGTATCACACACTCTAACTGTCCAT
CTATTTGCGAATGATAAGTAGTGCTGAAATTCAGCATGGTTTCCAAAGCTTCATGTAACTTACCT
CAGAACCTTGAGGTAAAACATGAATCTCTATCAGAGATAATAGACGCTGGTACTCCATGTAGTCG
TACGATCTCTGACACATATAACTCAGCCAACCTCTCAAGTGGATAATCTACCCGGACAAAAATGA
AGTGAGCTGACTTTGTCAATATGTCTACAATTACCCAGATCGAATCTTTCTTCTTTGGTGTTACC
GGAAGACCTATGA
Found at i:783651 original size:24 final size:24
Alignment explanation
Indices: 783624--783671 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
783614 GATGATTTCT
783624 CTATCTATAGACAAAATTTTGACC
1 CTATCTATAGACAAAATTTTGACC
783648 CTATCTATAGACAAAATTTTGACC
1 CTATCTATAGACAAAATTTTGACC
783672 AATACACTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (24 bp):
CTATCTATAGACAAAATTTTGACC
Found at i:787646 original size:24 final size:25
Alignment explanation
Indices: 787605--787656 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
787595 AGGATCAGTT
*
787605 GAAGGAGAAGGATCAAGA-AGAAGAA
1 GAAGGAGAAGGAACAAGAGA-AAGAA
*
787630 GAAGGA-AAGGAAGAAGAGAAAGAA
1 GAAGGAGAAGGAACAAGAGAAAGAA
787654 GAA
1 GAA
787657 AAAGAACCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.60, C:0.02, G:0.37, T:0.02
Consensus pattern (25 bp):
GAAGGAGAAGGAACAAGAGAAAGAA
Found at i:788098 original size:17 final size:18
Alignment explanation
Indices: 788066--788116 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 18
788056 TTCTTTTTAG
*
788066 TTAATTTTCA-TGCATTC
1 TTAATTGTCACTGCATTC
788083 TT-ATTGTGC-CTGCATT-
1 TTAATTGT-CACTGCATTC
788099 TTAATTGTCACTGCATTC
1 TTAATTGTCACTGCATTC
788117 CTTTTAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
16 7 0.25
17 21 0.75
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.49
Consensus pattern (18 bp):
TTAATTGTCACTGCATTC
Found at i:794255 original size:21 final size:21
Alignment explanation
Indices: 794229--794305 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
794219 AATAGTGTAG
794229 ACTTCTACCGATACAAGTGAT
1 ACTTCTACCGATACAAGTGAT
*
794250 AATTCTACCGATACAAGTGACT
1 ACTTCTACCGATACAAGTGA-T
* **
794272 -CTTCTACCGAAACAAGTCTT
1 ACTTCTACCGATACAAGTGAT
794292 ACTTCTACCGATAC
1 ACTTCTACCGATAC
794306 TAAAAACTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.02
21 46 0.96
22 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTGAT
Found at i:794315 original size:42 final size:42
Alignment explanation
Indices: 794230--794315 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
794220 ATAGTGTAGA
* * **
794230 CTTCTACCGATACAAGTGATAATTCTACCGATACAAGTGACT
1 CTTCTACCGAAACAAGTCATAATTCTACCGATACAAGAAACT
* *
794272 CTTCTACCGAAACAAGTCTTACTTCTACCGATACTAA-AAACT
1 CTTCTACCGAAACAAGTCATAATTCTACCGATAC-AAGAAACT
794314 CT
1 CT
794316 AAAGAGCTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
42 35 0.95
43 2 0.05
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.29
Consensus pattern (42 bp):
CTTCTACCGAAACAAGTCATAATTCTACCGATACAAGAAACT
Found at i:807735 original size:2 final size:2
Alignment explanation
Indices: 807730--807757 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
807720 AATAAAAAGA
807730 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
807758 GGATATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:810404 original size:9 final size:10
Alignment explanation
Indices: 810390--810462 Score: 55
Period size: 10 Copynumber: 7.5 Consensus size: 10
810380 GTAAGAGTTA
810390 ATTTTA-ATT
1 ATTTTATATT
810399 ATTTTATATT
1 ATTTTATATT
*
810409 ATTTATTTATTT
1 ATTT-TATA-TT
* *
810421 ATTTTGTTTT
1 ATTTTATATT
810431 ATTTT-TA-T
1 ATTTTATATT
*
810439 AATTTA-ATT
1 ATTTTATATT
*
810448 ATTTTATAGT
1 ATTTTATATT
810458 ATTTT
1 ATTTT
810463 TATAATTTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
8 6 0.12
9 13 0.25
10 21 0.41
11 5 0.10
12 6 0.12
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (10 bp):
ATTTTATATT
Found at i:810417 original size:22 final size:22
Alignment explanation
Indices: 810392--810469 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
810382 AAGAGTTAAT
810392 TTTAATTATTTTATATTATTTA
1 TTTAATTATTTTATATTATTTA
* * *
810414 TTTATTTATTTTGTTTTATTTTTATAA
1 TTTAATTA--TT-TTATATTATT-T-A
*
810441 TTTAATTATTTTATAGTATTT-
1 TTTAATTATTTTATATTATTTA
810462 TTATAATT
1 TT-TAATT
810470 TAATTAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
21 2 0.05
22 12 0.28
23 1 0.02
24 9 0.21
25 10 0.23
26 1 0.02
27 8 0.19
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (22 bp):
TTTAATTATTTTATATTATTTA
Found at i:810418 original size:18 final size:18
Alignment explanation
Indices: 810392--810461 Score: 62
Period size: 18 Copynumber: 4.2 Consensus size: 18
810382 AAGAGTTAAT
810392 TTTAATTATTTTATATTA
1 TTTAATTATTTTATATTA
*
810410 TTTATTTA-TTTAT-TT-
1 TTTAATTATTTTATATTA
*
810425 TGTT--TTATTTT-TATAA
1 T-TTAATTATTTTATATTA
*
810441 TTTAATTATTTTATAGTA
1 TTTAATTATTTTATATTA
810459 TTT
1 TTT
810462 TTATAATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
14 4 0.10
15 7 0.17
16 5 0.12
17 12 0.29
18 13 0.32
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTAATTATTTTATATTA
Found at i:810420 original size:27 final size:27
Alignment explanation
Indices: 810392--810493 Score: 101
Period size: 27 Copynumber: 3.9 Consensus size: 27
810382 AAGAGTTAAT
810392 TTTAATTATTTTATATTATTTATT-T-A
1 TTTAATTATTTTATATTATTT-TTATAA
*
810418 TTT-ATT-TTGT-T-TTATTTTTATAA
1 TTTAATTATTTTATATTATTTTTATAA
*
810441 TTTAATTATTTTATAGTATTTTTATAA
1 TTTAATTATTTTATATTATTTTTATAA
*
810468 TTTAATTAAATTTT-TAATATTTTTAT
1 TTTAATT--ATTTTATATTATTTTTAT
810494 GTGAATAGTC
Statistics
Matches: 64, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
21 2 0.03
22 7 0.11
23 5 0.08
24 6 0.09
25 6 0.09
26 4 0.06
27 18 0.28
28 11 0.17
29 5 0.08
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTAATTATTTTATATTATTTTTATAA
Found at i:810965 original size:21 final size:21
Alignment explanation
Indices: 810932--811002 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 21
810922 TAGTGTAATT
* *
810932 TTCTA-CGATACAAGTGTTAG
1 TTCTACCGATACAAGTCTTAC
* *
810952 TTCTACCGAAACAAGTCTCAC
1 TTCTACCGATACAAGTCTTAC
810973 TTCTACCGATACAAGTCTTAC
1 TTCTACCGATACAAGTCTTAC
810994 TTCTACCGA
1 TTCTACCGA
811003 CACTAAAAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 5 0.11
21 39 0.89
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.31
Consensus pattern (21 bp):
TTCTACCGATACAAGTCTTAC
Found at i:811704 original size:36 final size:36
Alignment explanation
Indices: 811636--811712 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
811626 CATTCATTAT
* *
811636 TCGTTTTACTCTCTATTGACCCAAATGACATAATGC
1 TCGTTTTACTCCCTATTGACCCAAAGGACATAATGC
* *
811672 TCGTTTTACTCCCTATTGA-CTAAGAGGTCATAATGC
1 TCGTTTTACTCCCTATTGACCCAA-AGGACATAATGC
811708 TCGTT
1 TCGTT
811713 ATTCTGCTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
35 3 0.08
36 33 0.92
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (36 bp):
TCGTTTTACTCCCTATTGACCCAAAGGACATAATGC
Found at i:819586 original size:16 final size:17
Alignment explanation
Indices: 819565--819596 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
819555 AAATACATTG
819565 GTAAAGT-CAAATAAAA
1 GTAAAGTCCAAATAAAA
819581 GTAAAGTCCAAATAAA
1 GTAAAGTCCAAATAAA
819597 CTAGACTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.19
Consensus pattern (17 bp):
GTAAAGTCCAAATAAAA
Found at i:822072 original size:36 final size:35
Alignment explanation
Indices: 822012--822109 Score: 151
Period size: 36 Copynumber: 2.7 Consensus size: 35
822002 CGTTATTCGA
822012 TTTACTCCCTATTGACCCAAAGGTCATAATGCTCGT
1 TTTACTCCCTATTGACCC-AAGGTCATAATGCTCGT
* * *
822048 TTTATTCCCTATTGAACCAGAGGTCATGATGCTCGT
1 TTTACTCCCTATTGACCCA-AGGTCATAATGCTCGT
822084 TTTACTCCCTATTGACCCAAGGTCAT
1 TTTACTCCCTATTGACCCAAGGTCAT
822110 GCTTTTTACC
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
35 8 0.14
36 48 0.86
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (35 bp):
TTTACTCCCTATTGACCCAAGGTCATAATGCTCGT
Found at i:825034 original size:15 final size:15
Alignment explanation
Indices: 825010--825041 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
825000 ATTCTAATCG
825010 CCACCACAATTTCCA
1 CCACCACAATTTCCA
*
825025 CCACCTCAATTTCCA
1 CCACCACAATTTCCA
825040 CC
1 CC
825042 GCCATTTGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.50, G:0.00, T:0.22
Consensus pattern (15 bp):
CCACCACAATTTCCA
Found at i:825321 original size:59 final size:59
Alignment explanation
Indices: 825232--825368 Score: 238
Period size: 59 Copynumber: 2.3 Consensus size: 59
825222 GCATTGATTA
* **
825232 TTTTGTAAACATTATTTTTATATTGTTTCATTTAATAAAAGTGAAGTTCATTTGAATAT
1 TTTTGTACACATTATTTTTATATTGTTTCATTTAATAAAAGCAAAGTTCATTTGAATAT
825291 TTTTGTACACATTATTTTTATATTGTTTCATTTAATAAAAGCAAAGTTCATTTGAATAT
1 TTTTGTACACATTATTTTTATATTGTTTCATTTAATAAAAGCAAAGTTCATTTGAATAT
*
825350 TTTTGTACACATTAGTTTT
1 TTTTGTACACATTATTTTT
825369 GAGTAAAGTT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 74 1.00
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.51
Consensus pattern (59 bp):
TTTTGTACACATTATTTTTATATTGTTTCATTTAATAAAAGCAAAGTTCATTTGAATAT
Found at i:825639 original size:24 final size:21
Alignment explanation
Indices: 825580--825639 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 21
825570 GATTTAATTA
825580 AAAAATATACAATAAATATTTAT
1 AAAAATAT--AATAAATATTTAT
*
825603 AAAAATA-ATTAAATAATTTGAAT
1 AAAAATATAATAAAT-ATTT--AT
825626 AAAAATATAATAAA
1 AAAAATATAATAAA
825640 AAATAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 6 0.19
21 4 0.13
23 16 0.52
24 5 0.16
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (21 bp):
AAAAATATAATAAATATTTAT
Found at i:825691 original size:150 final size:150
Alignment explanation
Indices: 825523--825969 Score: 659
Period size: 151 Copynumber: 3.0 Consensus size: 150
825513 GTTTATAATT
* * *
825523 AAAATTATAATGACTAAAAGACAAGAGGGAGTATATGTTAAAATTACGATTTAATTAAAAAATAT
1 AAAATTATAATGACTAAAAGACAAGAGGAAGTATATGTTAAAATTATGATTTAATT-AAAAATAA
*
825588 ACAATAAATATTTATAAAAATAATTAAATAATTTGAATAAAAATATAATAAAAAATAAAAA-AAA
65 ACAATAAATATTTATAAAAATAATTAAATAATTTGAATAAAAATAAAATAAAAAATAAAAATAAA
825652 TTAATTCTTTCAATTTGAATA
130 TTAATTCTTTCAATTTGAATA
* * * *
825673 AAAATTACATTGAGTAAAAGACAAGAGGAATTATATGTTAAAATTATGATTTAATTAAAAATAAA
1 AAAATTATAATGACTAAAAGACAAGAGGAAGTATATGTTAAAATTATGATTTAATTAAAAATAAA
* *
825738 TAATAAATAATTATAAAAATAATTAAATAATTTGAATAAAAA-AACAGA-AAAAAATAAAAATAA
66 CAATAAATATTTATAAAAATAATTAAATAATTTGAATAAAAATAA-A-ATAAAAAATAAAAATAA
*
825801 GTTTAATTCTTTCAATTTGAATA
129 -ATTAATTCTTTCAATTTGAATA
** ** *
825824 AAACCTATGGTGACTAAAAGACAAGAGGAAGTACGA-GTTAAAATTATGATTTAATTAAAAATAA
1 AAAATTATAATGACTAAAAGACAAGAGGAAGTA-TATGTTAAAATTATGATTTAATTAAAAATAA
*
825888 ACAATAAATATTTATAAAAATAATTAAATAATTTGAATAAAAATAAAATAGAAAATAAAAATAAA
65 ACAATAAATATTTATAAAAATAATTAAATAATTTGAATAAAAATAAAATAAAAAATAAAAATAAA
825953 TTTAATTCTTTCAATTT
130 -TTAATTCTTTCAATTT
825970 ATTATGGTTT
Statistics
Matches: 266, Mismatches: 23, Indels: 15
0.88 0.08 0.05
Matches are distributed among these distances:
148 1 0.00
149 61 0.23
150 54 0.20
151 147 0.55
152 3 0.01
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (150 bp):
AAAATTATAATGACTAAAAGACAAGAGGAAGTATATGTTAAAATTATGATTTAATTAAAAATAAA
CAATAAATATTTATAAAAATAATTAAATAATTTGAATAAAAATAAAATAAAAAATAAAAATAAAT
TAATTCTTTCAATTTGAATA
Found at i:825917 original size:20 final size:22
Alignment explanation
Indices: 825892--825933 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
825882 AAATAAACAA
825892 TAAAT-ATTT-ATAAAAATAAT
1 TAAATAATTTAATAAAAATAAT
825912 TAAATAATTTGAATAAAAATAA
1 TAAATAATTT-AATAAAAATAA
825934 AATAGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 4 0.21
23 10 0.53
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
TAAATAATTTAATAAAAATAAT
Found at i:826044 original size:20 final size:21
Alignment explanation
Indices: 826009--826048 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
825999 ATAAATACTA
826009 AAACCTTAATTTTAAAAACCT
1 AAACCTTAATTTTAAAAACCT
826030 AAACCTTAA-TTTAAAAACC
1 AAACCTTAATTTTAAAAACC
826049 CAAAACCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (21 bp):
AAACCTTAATTTTAAAAACCT
Found at i:826059 original size:20 final size:20
Alignment explanation
Indices: 826008--826064 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
825998 AATAAATACT
826008 AAAACCTTAATTTTAAAAACC
1 AAAACCTTAA-TTTAAAAACC
*
826029 TAAACCTTAATTTAAAAACCC
1 AAAACCTTAATTTAAAAA-CC
826050 AAAACC-TAA-TTAAAA
1 AAAACCTTAATTTAAAA
826065 CAAAAACACC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.18
20 11 0.33
21 16 0.48
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAACCTTAATTTAAAAACC
Found at i:826947 original size:19 final size:18
Alignment explanation
Indices: 826904--826947 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
826894 TTCGGGACTG
826904 ATTTGAAAATAATATAAAA
1 ATTT-AAAATAATATAAAA
*
826923 AGTTTAAAATAATTTAGAAA
1 A-TTTAAAATAATATA-AAA
826943 ATTTA
1 ATTTA
826948 GTGAAACAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (18 bp):
ATTTAAAATAATATAAAA
Found at i:833993 original size:20 final size:20
Alignment explanation
Indices: 833968--834010 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
833958 TAATTCAATC
833968 AAAAGCTTAGATATAAAATA
1 AAAAGCTTAGATATAAAATA
*
833988 AAAAGCTTAGATATAATATA
1 AAAAGCTTAGATATAAAATA
834008 AAA
1 AAA
834011 TAAATAGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.60, C:0.05, G:0.09, T:0.26
Consensus pattern (20 bp):
AAAAGCTTAGATATAAAATA
Found at i:834928 original size:22 final size:22
Alignment explanation
Indices: 834887--834939 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
834877 GTATTCCGGC
*
834887 TAAGGATGA-TAAAGACTTAAT
1 TAAGGATAATTAAAGACTTAAT
*
834908 TAAGGATAATTAATGACTTAAT
1 TAAGGATAATTAAAGACTTAAT
834930 TAA--ATAATTA
1 TAAGGATAATTA
834940 GGGATATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 7 0.24
21 8 0.28
22 14 0.48
ACGTcount: A:0.49, C:0.04, G:0.13, T:0.34
Consensus pattern (22 bp):
TAAGGATAATTAAAGACTTAAT
Found at i:839766 original size:14 final size:14
Alignment explanation
Indices: 839737--839766 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
839727 TATCATTCTC
839737 TTTGTTCTTTATTT
1 TTTGTTCTTTATTT
839751 TTTGTCTCTTTATTT
1 TTTGT-TCTTTATTT
839766 T
1 T
839767 ATAACATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.07, C:0.10, G:0.07, T:0.77
Consensus pattern (14 bp):
TTTGTTCTTTATTT
Found at i:842858 original size:20 final size:20
Alignment explanation
Indices: 842808--842858 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
842798 TTAAACCTCA
*
842808 AAACTTTAAACACTAAATCT
1 AAACTCTAAACACTAAATCT
* * *
842828 AAACACAAAACCCTAAAT-T
1 AAACTCTAAACACTAAATCT
842847 CAAACTCTAAAC
1 -AAACTCTAAAC
842859 TTTAAATCTC
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (20 bp):
AAACTCTAAACACTAAATCT
Found at i:843015 original size:30 final size:31
Alignment explanation
Indices: 842981--843046 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
842971 AAAATTGCAC
* **
842981 AAAAATAAAAAATATTAACTTTTG-AAAA-AA
1 AAAAAGAAAAAA-ATTAAAATTTGTAAAAGAA
*
843011 AAAAAGAAAATAATTAAAATTTGTAAAAGAA
1 AAAAAGAAAAAAATTAAAATTTGTAAAAGAA
843042 AAAAA
1 AAAAA
843047 ACATTTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.30
30 14 0.47
31 7 0.23
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.23
Consensus pattern (31 bp):
AAAAAGAAAAAAATTAAAATTTGTAAAAGAA
Found at i:850459 original size:11 final size:11
Alignment explanation
Indices: 850458--850515 Score: 59
Period size: 11 Copynumber: 5.3 Consensus size: 11
850448 AGGAAGAGAA
850458 AAAGAAAAAAG
1 AAAGAAAAAAG
850469 AAAGAAAAAAG
1 AAAGAAAAAAG
850480 AAA-AAGAAAAGG
1 AAAGAA-AAAA-G
850492 AAA-AAAAAA-
1 AAAGAAAAAAG
*
850501 ACAAGGAAAAAG
1 A-AAGAAAAAAG
850513 AAA
1 AAA
850516 AGGAGAGGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
9 1 0.02
10 4 0.10
11 29 0.71
12 7 0.17
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:850465 original size:6 final size:6
Alignment explanation
Indices: 850426--850516 Score: 60
Period size: 6 Copynumber: 14.7 Consensus size: 6
850416 TCATCCCAAA
* * * * *
850426 AAAAAT AAAAA- AAATAAC AAAAAG GAAGAG AAAAAG AAAAA- AGAAAG
1 AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
* *
850473 AAAAAAG AAAAAG AAAAGG AAAAAAA AAACAAGG AAAAAG AAAA
1 -AAAAAG AAAAAG AAAAAG -AAAAAG AAA-AA-G AAAAAG AAAA
850517 GGAGAGGTTG
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
5 7 0.10
6 41 0.61
7 16 0.24
8 3 0.04
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:850465 original size:18 final size:17
Alignment explanation
Indices: 850444--850516 Score: 71
Period size: 17 Copynumber: 4.2 Consensus size: 17
850434 AAAAAATAAC
850444 AAAAAGGAAGAGAAAAAG
1 AAAAA-GAAGAGAAAAAG
850462 AAAAAAGAA-AGAAAAAAG
1 -AAAAAGAAGAG-AAAAAG
*
850480 AAAAAGAAAAGGAAAAA-
1 AAAAAGAAGA-GAAAAAG
*
850497 AAAAACAAG-GAAAAAG
1 AAAAAGAAGAGAAAAAG
850513 AAAA
1 AAAA
850517 GGAGAGGTTG
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
15 6 0.12
16 4 0.08
17 17 0.35
18 15 0.31
19 6 0.12
ACGTcount: A:0.79, C:0.01, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAAAGAAGAGAAAAAG
Found at i:850466 original size:30 final size:29
Alignment explanation
Indices: 850426--850516 Score: 89
Period size: 30 Copynumber: 3.1 Consensus size: 29
850416 TCATCCCAAA
* * *
850426 AAAAATAAAAAAAATAACAAAAAGGAAGAG
1 AAAAAGAAAAAAAA-AACAAAAAGAAAAAG
850456 AAAAAGAAAAAAGAAAGA-AAAAAGAAAAAG
1 AAAAAGAAAAAA-AAA-ACAAAAAGAAAAAG
* *
850486 AAAAGGAAAAAAAAAAC--AAGGAAAAAG
1 AAAAAGAAAAAAAAAACAAAAAGAAAAAG
850513 AAAA
1 AAAA
850517 GGAGAGGTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
27 13 0.25
28 1 0.02
29 3 0.06
30 33 0.62
31 3 0.06
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (29 bp):
AAAAAGAAAAAAAAAACAAAAAGAAAAAG
Found at i:851519 original size:49 final size:49
Alignment explanation
Indices: 851460--851784 Score: 289
Period size: 49 Copynumber: 6.6 Consensus size: 49
851450 AGAAAACATT
* * * * *
851460 GAATCCTATACTCTAGAGATGTGAAGGGAAATATTGAAGCTGCAATGGC
1 GAATCTTATACCCTAGAGATGTGAAGGGAAAGATTGAAGCCGCAACGGC
* * * * * *
851509 GAATCTTATACCCTAAAGACGT-AGAGGGAAAGGTTTAAGTCGCAACGGT
1 GAATCTTATACCCTAGAGATGTGA-AGGGAAAGATTGAAGCCGCAACGGC
* * *
851558 GAACCTTATACCCTAG-GAATGTGAAGGGAAAGATTGAAGCCACAACGGT
1 GAATCTTATACCCTAGAG-ATGTGAAGGGAAAGATTGAAGCCGCAACGGC
* * *
851607 AAATCTTATACCCTAGAGATGT-AGAGGGAAAGGTTGAAGCCGCAACGGT
1 GAATCTTATACCCTAGAGATGTGA-AGGGAAAGATTGAAGCCGCAACGGC
* * * * * * * *
851656 TAACCCTATACCTTAGAGATGTGAAAGGAAATATTGAAGCCACAATGGC
1 GAATCTTATACCCTAGAGATGTGAAGGGAAAGATTGAAGCCGCAACGGC
* * * *
851705 AAATCTTATACCCTAAAGATGT-AGAGGGAAAGGTTGAAGCCGCAACGAC
1 GAATCTTATACCCTAGAGATGTGA-AGGGAAAGATTGAAGCCGCAACGGC
* * * *
851754 GAACCTTAAACCTTAGAGATGCGAAGGGAAA
1 GAATCTTATACCCTAGAGATGTGAAGGGAAA
851785 TGACAAAGCT
Statistics
Matches: 219, Mismatches: 49, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
48 4 0.02
49 211 0.96
50 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.21
Consensus pattern (49 bp):
GAATCTTATACCCTAGAGATGTGAAGGGAAAGATTGAAGCCGCAACGGC
Found at i:851635 original size:98 final size:98
Alignment explanation
Indices: 851473--851785 Score: 448
Period size: 98 Copynumber: 3.2 Consensus size: 98
851463 TCCTATACTC
** * *
851473 TAGAGATGTGAAGGGAAATATTGAAGCTGCAATGGCGAATCTTATACCCTAAAGACGTAGAGGGA
1 TAGAGATGTGAAGGGAAATATTGAAGCCACAATGGCAAATCTTATACCCTAAAGATGTAGAGGGA
* * *
851538 AAGGTTTAAGTCGCAACGGTGAACCTTATACCC
66 AAGGTTGAAGCCGCAACGGTGAACCTTATACCT
* * * *
851571 TAG-GAATGTGAAGGGAAAGATTGAAGCCACAACGGTAAATCTTATACCCTAGAGATGTAGAGGG
1 TAGAG-ATGTGAAGGGAAATATTGAAGCCACAATGGCAAATCTTATACCCTAAAGATGTAGAGGG
* *
851635 AAAGGTTGAAGCCGCAACGGTTAACCCTATACCT
65 AAAGGTTGAAGCCGCAACGGTGAACCTTATACCT
*
851669 TAGAGATGTGAAAGGAAATATTGAAGCCACAATGGCAAATCTTATACCCTAAAGATGTAGAGGGA
1 TAGAGATGTGAAGGGAAATATTGAAGCCACAATGGCAAATCTTATACCCTAAAGATGTAGAGGGA
** *
851734 AAGGTTGAAGCCGCAACGACGAACCTTAAACCT
66 AAGGTTGAAGCCGCAACGGTGAACCTTATACCT
*
851767 TAGAGATGCGAAGGGAAAT
1 TAGAGATGTGAAGGGAAAT
851786 GACAAAGCTT
Statistics
Matches: 188, Mismatches: 25, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
97 1 0.01
98 186 0.99
99 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.20
Consensus pattern (98 bp):
TAGAGATGTGAAGGGAAATATTGAAGCCACAATGGCAAATCTTATACCCTAAAGATGTAGAGGGA
AAGGTTGAAGCCGCAACGGTGAACCTTATACCT
Found at i:853074 original size:51 final size:51
Alignment explanation
Indices: 852993--853126 Score: 178
Period size: 51 Copynumber: 2.6 Consensus size: 51
852983 TATAAACGAA
* * * *
852993 AAAGGTTCGATGACTAAGTGTTATCGTGAGTAAATGAATCCTTCATGTATT
1 AAAGGTCCGATGACTAAGTGTTATCATGAGTAAATGAATCCATCATGGATT
* * *
853044 AAAGGTCCGATGATTAAGTGTCATCATGAGTAAATGAATCCATGATGGATT
1 AAAGGTCCGATGACTAAGTGTTATCATGAGTAAATGAATCCATCATGGATT
* * *
853095 AAAGGTCCAATGGCTCAGTGTTATCATGAGTA
1 AAAGGTCCGATGACTAAGTGTTATCATGAGTA
853127 TGTAAATTCC
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 71 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTTATCATGAGTAAATGAATCCATCATGGATT
Found at i:854677 original size:96 final size:96
Alignment explanation
Indices: 854424--854716 Score: 385
Period size: 96 Copynumber: 3.1 Consensus size: 96
854414 GGGTCGGATG
* * * * *
854424 AAAATAATGAAGCAGAGCTCAACGTCCCTAAGGTTATAGTGGATTGGAGTGAAACTTCAAATCCC
1 AAAATAATGAAGCAGAGCTCAACGTCCTTGAGGATACAGTGGAGTGGAGTGAAACTTCAAATCCC
** *
854489 ATCTAACT-GATAAGGTATAGAGAAGTGGGTC
66 ATCTTCCTAG-TAAGGTACAGAGAAGTGGGTC
*
854520 AAAATAATGAAGCAAAGC-CAACGTCCTTGA-GATTACAGTGGAGTGGAGTGAAACTTCAAATCC
1 AAAATAATGAAGCAGAGCTCAACGTCCTTGAGGA-TACAGTGGAGTGGAGTGAAACTTCAAATCC
* ** *
854583 TATCTTCCTAGTGTGGTACAGAGATGTGGGTC
65 CATCTTCCTAGTAAGGTACAGAGAAGTGGGTC
* * * * *
854615 AAAATAATGAAGCAGAGCTCAATGTCCTTGAGGATACAATAGAGTGGAGTGAGACTTCAAATCCG
1 AAAATAATGAAGCAGAGCTCAACGTCCTTGAGGATACAGTGGAGTGGAGTGAAACTTCAAATCCC
854680 ATCTTCCTAGTAAGGTACAGAGAAGTGGGTC
66 ATCTTCCTAGTAAGGTACAGAGAAGTGGGTC
854711 AAAATA
1 AAAATA
854717 GTGTGTTGAA
Statistics
Matches: 171, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
94 1 0.01
95 78 0.46
96 90 0.53
97 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.24
Consensus pattern (96 bp):
AAAATAATGAAGCAGAGCTCAACGTCCTTGAGGATACAGTGGAGTGGAGTGAAACTTCAAATCCC
ATCTTCCTAGTAAGGTACAGAGAAGTGGGTC
Found at i:854829 original size:114 final size:114
Alignment explanation
Indices: 854628--855403 Score: 841
Period size: 114 Copynumber: 6.8 Consensus size: 114
854618 ATAATGAAGC
* * * * * *
854628 AGAGCTCAATGTCCTTGAGGATACAATAGAGTGGAGTGAGACTTCAAATCCGATCTTCCTAGTAA
1 AGAGCTCAACGTCCCTGAGGATACAATGGAGTGGAGTGAGACTTCAAATCCCATCTTCCTGGTGA
* * * *
854693 GGTACAGAGAAGTGGGTCAAAATAGTGTGTTGAATCCAAACGATAAAGT
66 GGTACAGAGAAGTGGGTCAAAACAGTGTGTTGAATCAAAACAACAAAGT
* * *
854742 AGAGCTCAACGTCCCTGAGGATACAATGGAGTGGAGTAAGACTTCAAATCCCATCTTTCGGGTGA
1 AGAGCTCAACGTCCCTGAGGATACAATGGAGTGGAGTGAGACTTCAAATCCCATCTTCCTGGTGA
* * * * * *
854807 GGTACAAAGAAGTAGGTAAAAATAGTGTGTTGAATCAAAACGACGAAGT
66 GGTACAGAGAAGTGGGTCAAAACAGTGTGTTGAATCAAAACAACAAAGT
* *
854856 AGAGCTCAACGTCCCTAAGGATACAATGGAGTGGAGTGAGACTTCAAATCCCATCTTCCGGGTGA
1 AGAGCTCAACGTCCCTGAGGATACAATGGAGTGGAGTGAGACTTCAAATCCCATCTTCCTGGTGA
* * * *
854921 GGTAAAGAGAAGTGAGTCAAAACAGTGTGTTGAATCAAAATAACAAAGC
66 GGTACAGAGAAGTGGGTCAAAACAGTGTGTTGAATCAAAACAACAAAGT
* * * * * * *
854970 CGAGCTCAACGTCTCTGAGGATATAGTAGAGTGGAGAGGAGTAAAACTTCAAATCCCATCTTTCT
1 AGAGCTCAACGTCCCTGAGG--ATA-CA-A-TGGAGTGGAGTGAGACTTCAAATCCCATCTTCCT
* *** ** *
855035 TGTGAGGTACAGAGAAGTGGGTTGGAACAGTGTGTTGAAGGAAAACAAGAAAGT
61 GGTGAGGTACAGAGAAGTGGGTCAAAACAGTGTGTTGAATCAAAACAACAAAGT
* * * * * *
855089 CGATCTCAACATCCCTGAGGATATAGTGGAGTGGAGTGAGACTTCATATCCCATCTTCCTGGTGA
1 AGAGCTCAACGTCCCTGAGGATACAATGGAGTGGAGTGAGACTTCAAATCCCATCTTCCTGGTGA
* * * ** * * **
855154 GGTACAGAGAAGTGTGTCAATATAGAATGTTAAATCAAAGCAATGAAGT
66 GGTACAGAGAAGTGGGTCAAAACAGTGTGTTGAATCAAAACAACAAAGT
* * * * * **
855203 CGAGCTCAACGTCCCTAAGGATATAGTGAAGTGGAGTGAGACTTTGAATCCCATCTTCCTGGTGA
1 AGAGCTCAACGTCCCTGAGGATACAATGGAGTGGAGTGAGACTTCAAATCCCATCTTCCTGGTGA
* * * * *
855268 GGTATAGAGAAGTGGGTCAAAACAGTTTGGTAAATCAAAACAACGAAGT
66 GGTACAGAGAAGTGGGTCAAAACAGTGTGTTGAATCAAAACAACAAAGT
* * * * * * *
855317 TGAGCTCAATGTCTCTGAGGAAACAGTGGAGTGGAGTGAGACTTCAAATCTCATCTTCTTGGTGA
1 AGAGCTCAACGTCCCTGAGGATACAATGGAGTGGAGTGAGACTTCAAATCCCATCTTCCTGGTGA
*
855382 GGTACAGAGAAGTGGGTTAAAA
66 GGTACAGAGAAGTGGGTCAAAA
855404 AAAATAGTGA
Statistics
Matches: 556, Mismatches: 101, Indels: 10
0.83 0.15 0.01
Matches are distributed among these distances:
114 457 0.82
116 5 0.01
117 4 0.01
118 1 0.00
119 89 0.16
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.24
Consensus pattern (114 bp):
AGAGCTCAACGTCCCTGAGGATACAATGGAGTGGAGTGAGACTTCAAATCCCATCTTCCTGGTGA
GGTACAGAGAAGTGGGTCAAAACAGTGTGTTGAATCAAAACAACAAAGT
Found at i:855243 original size:347 final size:342
Alignment explanation
Indices: 854624--855403 Score: 918
Period size: 347 Copynumber: 2.3 Consensus size: 342
854614 CAAAATAATG
* * * * * * * * * *
854624 AAGCAGAGCTCAATGTC-CTTGAGGATACAATAGAGTGGAGTGAGACTTCAAATCCGATCTTCCT
1 AAGCCGAGCTCAACGTCTC-TGAGGAAACAGTGGAGAGGAGTAAAACTTCAAATCCCATCTTTCT
* * * * * * * * *
854688 AGTAAGGTACAGAGAAGTGGGTCAAAATAGTGTGTTGAATCCAAACGATAAAGTAGAGCTCAACG
65 TGTGAGGTACAGAGAAGTGGGTTAAAACAGTGTGTTGAAGCAAAACAAGAAAGTAGAGCTCAACA
*
854753 TCCCTGAGGATACAATGGAGTGGAGTAAGACTTCAAATCCCATCTTTCGGGTGAGGTACAAAGAA
130 TCCCTGAGGATACAATGGAGTGGAGTAAGACTTCAAATCCCATCTTCCGGGTGAGGTACAAAGAA
** * *
854818 GTAGGTAAAAATAGTGTGTTGAATCAAAACGACGAAGTAGAGCTCAACGTCCCTAAGGATACAAT
195 GTAGGTAAAAATAGAATGTTAAATCAAAACAACGAAGTAGAGCTCAACGTCCCTAAGGATACAAT
*
854883 GGAGTGGAGTGAGACTTCAAATCCCATCTTCCGGGTGAGGTAAAGAGAAGTGAGTCAAAACAGTG
260 GAAGTGGAGTGAGACTTCAAATCCCATCTTCCGGGTGAGGTAAAGAGAAGTGAGTCAAAACAGTG
* * *
854948 TGTTGAATCAAAATAACA
325 TGGTAAATCAAAACAACA
*
854966 AAGCCGAGCTCAACGTCTCTGAGGATATAGTAGAGTGGAGAGGAGTAAAACTTCAAATCCCATCT
1 AAGCCGAGCTCAACGTCTCTGAGG--A-A--ACAGTGGAGAGGAGTAAAACTTCAAATCCCATCT
** * * *
855031 TTCTTGTGAGGTACAGAGAAGTGGGTTGGAACAGTGTGTTGAAGGAAAACAAGAAAGTCGATCTC
61 TTCTTGTGAGGTACAGAGAAGTGGGTTAAAACAGTGTGTTGAAGCAAAACAAGAAAGTAGAGCTC
* * * * * *
855096 AACATCCCTGAGGATATAGTGGAGTGGAGTGAGACTTCATATCCCATCTTCCTGGTGAGGTACAG
126 AACATCCCTGAGGATACAATGGAGTGGAGTAAGACTTCAAATCCCATCTTCCGGGTGAGGTACAA
* * * * *
855161 AGAAGT-GTGTCAATATAGAATGTTAAATCAAAGCAATGAAGTCGAGCTCAACGTCCCTAAGGAT
191 AGAAGTAG-GTAAAAATAGAATGTTAAATCAAAACAACGAAGTAGAGCTCAACGTCCCTAAGGAT
* * ** * * *
855225 ATAGTGAAGTGGAGTGAGACTTTGAATCCCATCTTCCTGGTGAGGTATAGAGAAGTGGGTCAAAA
255 ACAATGAAGTGGAGTGAGACTTCAAATCCCATCTTCCGGGTGAGGTAAAGAGAAGTGAGTCAAAA
* *
855290 CAGTTTGGTAAATCAAAACAACG
320 CAGTGTGGTAAATCAAAACAACA
** * * * * *
855313 AAGTTGAGCTCAATGTCTCTGAGGAAACAGTGGAGTGGAGTGAGACTTCAAATCTCATC-TTCTT
1 AAGCCGAGCTCAACGTCTCTGAGGAAACAGTGGAGAGGAGTAAAACTTCAAATCCCATCTTTCTT
855377 GGTGAGGTACAGAGAAGTGGGTTAAAA
66 -GTGAGGTACAGAGAAGTGGGTTAAAA
855404 AAAATAGTGA
Statistics
Matches: 366, Mismatches: 64, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
341 5 0.01
342 72 0.20
343 1 0.00
344 2 0.01
345 1 0.00
346 1 0.00
347 284 0.78
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.24
Consensus pattern (342 bp):
AAGCCGAGCTCAACGTCTCTGAGGAAACAGTGGAGAGGAGTAAAACTTCAAATCCCATCTTTCTT
GTGAGGTACAGAGAAGTGGGTTAAAACAGTGTGTTGAAGCAAAACAAGAAAGTAGAGCTCAACAT
CCCTGAGGATACAATGGAGTGGAGTAAGACTTCAAATCCCATCTTCCGGGTGAGGTACAAAGAAG
TAGGTAAAAATAGAATGTTAAATCAAAACAACGAAGTAGAGCTCAACGTCCCTAAGGATACAATG
AAGTGGAGTGAGACTTCAAATCCCATCTTCCGGGTGAGGTAAAGAGAAGTGAGTCAAAACAGTGT
GGTAAATCAAAACAACA
Found at i:859924 original size:17 final size:17
Alignment explanation
Indices: 859885--859971 Score: 60
Period size: 17 Copynumber: 5.4 Consensus size: 17
859875 TAGATCAAAC
* *
859885 TTTTAATTTTAAATTTA
1 TTTTAAATTTAAATTGA
* *
859902 TATTAAGTTTAAATTGA
1 TTTTAAATTTAAATTGA
859919 TTTTAAATTT--A-T--
1 TTTTAAATTTAAATTGA
*
859931 TTTTAAATTTAAATTTA
1 TTTTAAATTTAAATTGA
* *
859948 GTTTAAATTTGAAA-TGG
1 TTTTAAATTT-AAATTGA
859965 TTTTAAA
1 TTTTAAA
859972 CTAAATATTG
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
12 10 0.18
14 2 0.04
15 2 0.04
17 38 0.69
18 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (17 bp):
TTTTAAATTTAAATTGA
Found at i:859943 original size:18 final size:17
Alignment explanation
Indices: 859920--859962 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
859910 TTAAATTGAT
*
859920 TTTAAATTTATTTTTAAA
1 TTTAAATTTA-GTTTAAA
859938 TTTAAATTTAGTTTAAA
1 TTTAAATTTAGTTTAAA
859955 TTTGAAAT
1 TTT-AAAT
859963 GGTTTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
TTTAAATTTAGTTTAAA
Found at i:860495 original size:39 final size:41
Alignment explanation
Indices: 860405--860496 Score: 116
Period size: 46 Copynumber: 2.2 Consensus size: 41
860395 AGTTAGAGGG
860405 CATACCACCAAGCATTTTCGCATTCGATATTAGCAAAGACAAAGT
1 CATACCACCAAGCATTTTCGCATTCGATATTAGCAAAG----AGT
*
860450 GCATACCACCAAGCATTTTCGCATTTGATATTAGCAAAG-GT
1 -CATACCACCAAGCATTTTCGCATTCGATATTAGCAAAGAGT
860491 -ATACCA
1 CATACCA
860497 TTCGAATACC
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
39 6 0.13
41 2 0.04
46 37 0.82
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (41 bp):
CATACCACCAAGCATTTTCGCATTCGATATTAGCAAAGAGT
Found at i:860680 original size:3 final size:3
Alignment explanation
Indices: 860672--860719 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
860662 AAATATAGTG
* * * *
860672 ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA GTT TTA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
860719 A
1 A
860720 ATAAAAAGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:860699 original size:24 final size:23
Alignment explanation
Indices: 860630--860701 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 23
860620 TAATAGATGG
*
860630 TAATAAATAAATAATAA-AGTATAT
1 TAAT-AAT-AATAATAATAGTATAA
860654 TAATAA-AGA-AAT-ATAGTGATAA
1 TAATAATA-ATAATAATAGT-ATAA
860676 TAATAATAATAATAATAGTAATAA
1 TAATAATAATAATAATAGT-ATAA
860700 TA
1 TA
860702 GTTTTAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
20 1 0.03
21 7 0.17
22 11 0.28
23 6 0.15
24 15 0.38
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (23 bp):
TAATAATAATAATAATAGTATAA
Found at i:861771 original size:30 final size:28
Alignment explanation
Indices: 861737--862491 Score: 422
Period size: 29 Copynumber: 26.0 Consensus size: 28
861727 AAAAGGTCCC
* * *
861737 TAAACTTTCTAAAAATCATATTTTAACCCT
1 TAAAC-TTCCAAAAATTACATTTT-ACCCT
* *
861767 TAAACTTTCTAAAATTACATTTTAACCCT
1 TAAACTTCCAAAAATTACATTTT-ACCCT
* * * *
861796 CAAATTTTCCAAAAATAACATTTTTGCCCT
1 TAAA-CTTCCAAAAATTACA-TTTTACCCT
**
861826 CGAACTTCCAAAAATTACCATTTTACCCT
1 TAAACTTCCAAAAATTA-CATTTTACCCT
861855 TAAACTTCC-AAAATTACCATTTTACCCT
1 TAAACTTCCAAAAATTA-CATTTTACCCT
* *
861883 TAAACTTCCAAAAATCACATTTTTGCCCT
1 TAAACTTCCAAAAATTACA-TTTTACCCT
** * *
861912 CGAACTTCCAATAATTACCATTTTTCCCCT
1 TAAACTTCCAAAAATTA-CA-TTTTACCCT
* * *
861942 T-ACCTTTCAAAAATTACATTTTTAACCT
1 TAAACTTCCAAAAATTACA-TTTTACCCT
** ** **
861970 CGAACTTACCAAAAACCACATTTTTGCCT
1 TAAACTT-CCAAAAATTACATTTTACCCT
*
861999 CCAAACTTCCAAAAATTACCATTTTACCCT
1 -TAAACTTCCAAAAATTA-CATTTTACCCT
**
862029 CGAA-TGTCCAAAAATTACATTTTTTATCCC-
1 TAAACT-TCCAAAAATTACA--TTTTA-CCCT
* *
862059 -AAACTTTCCCAGAATTATCATTTTACCCT
1 TAAAC-TTCCAAAAATTA-CATTTTACCCT
** *
862088 CGAACATT-CTAAAATTACCATTTTACCCCT
1 TAAAC-TTCCAAAAATTA-CATTTTA-CCCT
*
862118 T-AACATCCAAAAATTACCATTTTACCC-
1 TAAACTTCCAAAAATTA-CATTTTACCCT
** *
862145 CGAA-TGTCCAAAAAATACATTTTTGACCC-
1 TAAACT-TCCAAAAATTACA-TTTT-ACCCT
* * *
862174 TAAACTTTTCAAAAATTACCATTTTGCACT
1 TAAAC-TTCCAAAAATTA-CATTTTACCCT
* *
862204 TGAACTTCCAAAAATTACCATTTTACTCT
1 TAAACTTCCAAAAATTA-CATTTTACCCT
*
862233 TAAACTTCCAAAAATCACATTTTTACCCT
1 TAAACTTCCAAAAATTACA-TTTTACCCT
** *
862262 CGAACTTCCAATAATTACCATTTTACCCCT
1 TAAACTTCCAAAAATTA-CATTTTA-CCCT
* * *
862292 T-ACCTTCCAAAAATTCCATTTTAGACCT
1 TAAACTTCCAAAAATTACATTTTA-CCCT
** * ** *
862320 CGATCTTTCCAAAAACCACATTTTTACCCC
1 TAAAC-TTCCAAAAATTACA-TTTTACCCT
*
862350 CAAACTTCCAAAAATTATCATTTTACCCT
1 TAAACTTCCAAAAATTA-CATTTTACCCT
** **
862379 CGAA-TATCCAAAAATTACATTTTTTCCT
1 TAAACT-TCCAAAAATTACATTTTACCCT
* *
862407 TGAACTTCCTAAAATTACATTTTACCCT
1 TAAACTTCCAAAAATTACATTTTACCCT
**
862435 CGAA-TATCCAAAAATTACCATTTTATCCC-
1 TAAACT-TCCAAAAATTA-CATTTTA-CCCT
* **
862464 TGAACAACCAAAAATTACCATTTTACCC
1 TAAACTTCCAAAAATTA-CATTTTACCC
862492 CGAATGTCCA
Statistics
Matches: 579, Mismatches: 104, Indels: 86
0.75 0.14 0.11
Matches are distributed among these distances:
27 3 0.01
28 126 0.22
29 305 0.53
30 127 0.22
31 18 0.03
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (28 bp):
TAAACTTCCAAAAATTACATTTTACCCT
Found at i:861860 original size:88 final size:85
Alignment explanation
Indices: 861756--862520 Score: 622
Period size: 88 Copynumber: 8.8 Consensus size: 85
861746 TAAAAATCAT
* * *
861756 ATTTTAACCCTTAAACTTTCTAAAATTACATTTTAACCCTCAAATTTTCCAAAAATAACATTTTT
1 ATTTT-ACCCTT-AACTTCCAAAAATTACATTTT-ACCCTCAAA-TTTCCAAAAATCACATTTTT
*
861821 GCCCTCGAACTTCCAAAAATTACC
62 ACCCTCGAACTTCCAAAAATTACC
* * *
861845 ATTTTACCCTTAAACTTCC-AAAATTACCATTTTACCCTTAAACTTCCAAAAATCACATTTTTGC
1 ATTTTACCCTT-AACTTCCAAAAATTA-CATTTTACCCTCAAATTTCCAAAAATCACATTTTTAC
*
861909 CCTCGAACTTCCAATAATTACC
64 CCTCGAACTTCCAAAAATTACC
* * * * * * *
861931 ATTTTTCCCCTTACCTTTCAAAAATTACATTTTTAACCTCGAACTTACCAAAAACCACATTTTT-
1 A-TTTTACCCTTAACTTCCAAAAATTACA-TTTTACCCTC-AAATTTCCAAAAATCACATTTTTA
* *
861995 GCCTCCAAACTTCCAAAAATTACC
63 CCCT-CGAACTTCCAAAAATTACC
* * * * *
862019 ATTTTACCCTCGAA-TGTCCAAAAATTACATTTTTTATCC-CAAACTTTCCCAGAATTATCA-TT
1 ATTTTACCCT-TAACT-TCCAAAAATTACA--TTTTACCCTCAAA-TTTCCAAAAATCA-CATTT
*
862081 TTACCCTCGAACATT-CTAAAATTACC
60 TTACCCTCGAAC-TTCCAAAAATTACC
* * *
862107 ATTTTACCCCTTAACATCCAAAAATTACCATTTTACCC-CGAATGTCCAAAAAAT-ACATTTTTG
1 ATTTTA-CCCTTAACTTCCAAAAATTA-CATTTTACCCTCAAATTTCC-AAAAATCACATTTTT-
* *
862170 ACCCT-AAACTTTTCAAAAATTACC
62 ACCCTCGAAC-TTCCAAAAATTACC
* * * * *
862194 ATTTTGCACTTGAACTTCCAAAAATTACCATTTTACTCTTAAACTTCCAAAAATCACATTTTTAC
1 ATTTTACCCTT-AACTTCCAAAAATTA-CATTTTACCCTCAAATTTCCAAAAATCACATTTTTAC
*
862259 CCTCGAACTTCCAATAATTACC
64 CCTCGAACTTCCAAAAATTACC
* * * ** *
862281 ATTTTACCCCTTACCTTCCAAAAATTCCATTTTAGACCTCGATCTTTCCAAAAACCACATTTTTA
1 ATTTTA-CCCTTAACTTCCAAAAATTACATTTTA-CCCTC-AAATTTCCAAAAATCACATTTTTA
* * *
862346 CCCCCAAACTTCCAAAAATTATC
63 CCCTCGAACTTCCAAAAATTACC
* ** ** * * *
862369 ATTTTACCCTCGAA-TATCCAAAAATTACATTTTTTCCTTGAACTTCCTAAAATTACA-TTTTAC
1 ATTTTACCCT-TAACT-TCCAAAAATTACATTTTACCCTCAAATTTCCAAAAATCACATTTTTAC
862432 CCTCGAA-TATCCAAAAATTACC
64 CCTCGAACT-TCCAAAAATTACC
* ** * *
862454 ATTTTATCCCTGAACAACCAAAAATTACCATTTTACCC-CGAATGTCCAAAAGAT-ACATTTTTG
1 ATTTTA-CCCTTAACTTCCAAAAATTA-CATTTTACCCTCAAATTTCCAAAA-ATCACATTTTT-
862517 ACCC
62 ACCC
862521 CGAGCTTTTT
Statistics
Matches: 549, Mismatches: 91, Indels: 74
0.77 0.13 0.10
Matches are distributed among these distances:
84 1 0.00
85 56 0.10
86 103 0.19
87 166 0.30
88 197 0.36
89 26 0.05
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.34
Consensus pattern (85 bp):
ATTTTACCCTTAACTTCCAAAAATTACATTTTACCCTCAAATTTCCAAAAATCACATTTTTACCC
TCGAACTTCCAAAAATTACC
Found at i:861954 original size:58 final size:58
Alignment explanation
Indices: 861763--862749 Score: 576
Period size: 58 Copynumber: 17.0 Consensus size: 58
861753 CATATTTTAA
* * * * * *
861763 CCCTTAAACTTTCTAAAATTA-CATTTTAACCCTCAAATTTTCCAAAAA-TAACATTTTTG
1 CCCTT-AACTTCCAAAAATTACCATTTT-ACCCTCGAA-CTTCCAAAAATTACCATTTTTC
* ** *
861822 CCCTCGAACTTCCAAAAATTACCATTTTACCCTTAAACTTCC-AAAATTACCA-TTTTA
1 CCCT-TAACTTCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTACCATTTTTC
* * *
861879 CCCTTAAACTTCCAAAAATCA-CATTTTTGCCCTCGAACTTCCAATAATTACCATTTTTC
1 CCCTT-AACTTCCAAAAATTACCA-TTTTACCCTCGAACTTCCAAAAATTACCATTTTTC
* * * **
861938 CCCTTACCTTTCAAAAATTA-CATTTTTAACCTCGAACTTACCAAAAACCA-CATTTTTGC
1 CCCTTAACTTCCAAAAATTACCA-TTTTACCCTCGAACTT-CCAAAAATTACCATTTTT-C
* *
861997 CTCC-AAACTTCCAAAAATTACCATTTTACCCTCGAA-TGTCCAAAAATTA-CATTTTTTAT
1 C-CCTTAACTTCCAAAAATTACCATTTTACCCTCGAACT-TCCAAAAATTACCA-TTTTT-C
* * * * * *
862056 CCC-AAACTTTCCCAGAATTATCATTTTACCCTCGAACATT-CTAAAATTACCATTTTAC
1 CCCTTAAC-TTCCAAAAATTACCATTTTACCCTCGAAC-TTCCAAAAATTACCATTTTTC
* * *
862114 CCCTTAACATCCAAAAATTACCATTTTACCC-CGAA-TGTCCAAAAAATA-CATTTTTGA
1 CCCTTAACTTCCAAAAATTACCATTTTACCCTCGAACT-TCCAAAAATTACCATTTTT-C
* * * * * *
862171 CCCTAAACTTTTCAAAAATTACCATTTTGCACTTGAACTTCCAAAAATTACCA-TTTTA
1 CCCTTAAC-TTCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTACCATTTTTC
* * * *
862229 CTCTTAAACTTCCAAAAATCA-CATTTTTACCCTCGAACTTCCAATAATTACCATTTTAC
1 CCCTT-AACTTCCAAAAATTACCA-TTTTACCCTCGAACTTCCAAAAATTACCATTTTTC
* * * **
862288 CCCTTACCTTCCAAAAATT-CCATTTTAGACCTCGATCTTTCCAAAAACCA-CATTTTTAC
1 CCCTTAACTTCCAAAAATTACCATTTTA-CCCTCGAAC-TTCCAAAAATTACCATTTTT-C
** *
862347 CCCCAAACTTCCAAAAATTATCATTTTACCCTCGAA-TATCCAAAAATTA-CATTTTT-
1 CCCTTAACTTCCAAAAATTACCATTTTACCCTCGAACT-TCCAAAAATTACCATTTTTC
* *
862403 TCCTTGAACTTCCTAAAATTA-CATTTTACCCTCGAA-TATCCAAAAATTACCATTTTAT-
1 CCCTT-AACTTCCAAAAATTACCATTTTACCCTCGAACT-TCCAAAAATTACCATTTT-TC
* **
862461 CCCTGAACAACCAAAAATTACCATTTTACCC-CGAA-TGTCCAAAAGA-TA-CATTTTTGAC
1 CCCTTAACTTCCAAAAATTACCATTTTACCCTCGAACT-TCCAAAA-ATTACCATTTTT--C
* * ** * * * * ** *
862519 CCC-GAGCTTTTTAAAAATTACTATTTT-CCCCCG-AGTGTCCAAAAATTATCGCTTTAC
1 CCCTTAAC-TTCCAAAAATTACCATTTTACCCTCGAACT-TCCAAAAATTACCATTTTTC
** * ** * * ** * *
862576 CTCCCAAACGTCCAAAAATTACCATTTTTACCC-CTG-GGTGTCTAAAATTTGTC-GTTTTA
1 C-CCTTAACTTCCAAAAATTACCA-TTTTACCCTC-GAACT-TCCAAAAATTACCATTTTTC
** * * * *
862635 CCCTCGATTGTCTC-AAAATTACCATTTTACCCCTCGAGCATCTAAAAATTA-CATTTTTAC
1 CCCTTAACT-TC-CAAAAATTACCATTTTA-CCCTCGAACTTCCAAAAATTACCATTTTT-C
* ** *
862695 CCC-TAACTTCCAAAAATTATCATTTTACCCTCGGGCATCCAAAAATTA-CATTTTT
1 CCCTTAACTTCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTACCATTTTT
862750 GACTCTATTT
Statistics
Matches: 740, Mismatches: 128, Indels: 122
0.75 0.13 0.12
Matches are distributed among these distances:
55 2 0.00
56 45 0.06
57 150 0.20
58 276 0.37
59 220 0.30
60 46 0.06
61 1 0.00
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (58 bp):
CCCTTAACTTCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTACCATTTTTC
Found at i:862428 original size:262 final size:263
Alignment explanation
Indices: 861777--862490 Score: 684
Period size: 262 Copynumber: 2.7 Consensus size: 263
861767 TAAACTTTCT
* * *
861777 AAAATTACATTTTA-ACCCTCAAATTTTCCAAAAATAACATTTTTGCCCTCGAACTTCCAAAAAT
1 AAAATTACATTTTAGATCC-CAAACTTTCCAAAAATAACATTTTTACCCTCGAACTTCCAAAAAT
* * *
861841 TACCATTTTACCCTTAAACT-TCC-AAAATTACCA-TTTTACCCTTAAACTTCCAAAAATCACAT
65 TACCATTTTACCCTCAAA-TATCCAAAAATTACCATTTTTA-CCTTGAACTTCCAAAAATTACAT
* * *
861903 TTTTG-CCCTCGAAC-TTCCAATAATTACCATTTTTCCCCTT-ACCTTTCAAAAATTA-CATTTT
128 TTTTGACCCTCGAACTTTCCAAAAATTACCA-TTTT-CCCTTGAACTTCCAAAAATTACCA-TTT
* *
861964 TAACCTCGAACTTACCAAAAACCACATTTTTGCCTCCAAACTTCCAAAAATTACCATTTTACCCT
190 T-ACCTCAAACTTACCAAAAACCACATTTTTCCCTCCAAACTTCCAAAAATTACCATTTTACCCT
862029 CGAATGTCCA
254 CGAATGTCCA
** * * * *
862039 AAAATTACATTTTTTATCCCAAACTTTCCCAGAATTATCA-TTTTACCCTCGAACATT-CTAAAA
1 AAAATTACATTTTAGATCCCAAACTTT-CCAAAAATAACATTTTTACCCTCGAAC-TTCCAAAAA
* * ** *
862102 TTACCATTTTACCC-CTTAACATCCAAAAATTACCA-TTTTACCCCGAA-TGTCCAAAAAATACA
64 TTACCATTTTACCCTC-AAATATCCAAAAATTACCATTTTTACCTTGAACT-TCCAAAAATTACA
* * *
862164 TTTTTGACCCT-AAACTTTTCAAAAATTACCATTTTGCACTTGAACTTCCAAAAATTACCATTTT
127 TTTTTGACCCTCGAACTTTCCAAAAATTACCATTTT-CCCTTGAACTTCCAAAAATTACCATTTT
* * * *
862228 ACTCTTAAACTT-CCAAAAATCACATTTTTACCCT-CGAACTTCCAATAATTACCATTTTACCC-
191 AC-CTCAAACTTACCAAAAACCACATTTTT-CCCTCCAAACTTCCAAAAATTACCATTTTACCCT
* *
862290 CTTACCT-TCCA
254 C-GA-ATGTCCA
* * * ** * *
862301 AAAATTCCATTTTAGA-CCTCGATCTTTCCAAAAACCACATTTTTACCCCCAAACTTCCAAAAAT
1 AAAATTACATTTTAGATCC-CAAACTTTCCAAAAATAACATTTTTACCCTCGAACTTCCAAAAAT
* * * *
862365 TATCATTTTACCCTCGAATATCCAAAAATTA-CATTTTTTCCTTGAACTTCCTAAAATTACA-TT
65 TACCATTTTACCCTCAAATATCCAAAAATTACCATTTTTACCTTGAACTTCCAAAAATTACATTT
* **
862428 TT-ACCCTCGAA-TATCCAAAAATTACCATTTTATCCC-TGAACAACCAAAAATTACCATTTTAC
130 TTGACCCTCGAACTTTCCAAAAATTACCA-TTT-TCCCTTGAACTTCCAAAAATTACCATTTTAC
862490 C
193 C
862491 CCGAATGTCC
Statistics
Matches: 370, Mismatches: 58, Indels: 51
0.77 0.12 0.11
Matches are distributed among these distances:
259 1 0.00
260 43 0.12
261 26 0.07
262 222 0.60
263 76 0.21
264 2 0.01
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.34
Consensus pattern (263 bp):
AAAATTACATTTTAGATCCCAAACTTTCCAAAAATAACATTTTTACCCTCGAACTTCCAAAAATT
ACCATTTTACCCTCAAATATCCAAAAATTACCATTTTTACCTTGAACTTCCAAAAATTACATTTT
TGACCCTCGAACTTTCCAAAAATTACCATTTTCCCTTGAACTTCCAAAAATTACCATTTTACCTC
AAACTTACCAAAAACCACATTTTTCCCTCCAAACTTCCAAAAATTACCATTTTACCCTCGAATGT
CCA
Found at i:862669 original size:30 final size:30
Alignment explanation
Indices: 862590--862698 Score: 93
Period size: 30 Copynumber: 3.7 Consensus size: 30
862580 CAAACGTCCA
*
862590 AAAATTACCATTTTTACCCCT-GGGTGTCT
1 AAAATTACCATTTTTACCCCTCGAGTGTCT
** * *
862619 AAAATTTGTC-GTTTTA-CCCTCGATTGTCT
1 AAAA-TTACCATTTTTACCCCTCGAGTGTCT
**
862648 CAAAATTACCA-TTTTACCCCTCGAGCATCT
1 -AAAATTACCATTTTTACCCCTCGAGTGTCT
862678 AAAAATTA-CATTTTTACCCCT
1 -AAAATTACCATTTTTACCCCT
862699 AACTTCCAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
28 4 0.06
29 25 0.40
30 34 0.54
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.38
Consensus pattern (30 bp):
AAAATTACCATTTTTACCCCTCGAGTGTCT
Found at i:862681 original size:29 final size:29
Alignment explanation
Indices: 862649--862748 Score: 116
Period size: 28 Copynumber: 3.4 Consensus size: 29
862639 CGATTGTCTC
*
862649 AAAATTACCATTTTACCCCTCGAGCATCTA
1 AAAATTA-CATTTTACCCCTCGAGCATCCA
* *
862679 AAAATTACATTTTTACCCCT--AACTTCCA
1 AAAATTACA-TTTTACCCCTCGAGCATCCA
*
862707 AAAATTATCATTTTA-CCCTCGGGCATCCA
1 AAAATTA-CATTTTACCCCTCGAGCATCCA
862736 AAAATTACATTTT
1 AAAATTACATTTT
862749 TGACTCTATT
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
27 4 0.07
28 23 0.38
29 16 0.27
30 17 0.28
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (29 bp):
AAAATTACATTTTACCCCTCGAGCATCCA
Found at i:862749 original size:29 final size:29
Alignment explanation
Indices: 861803--862748 Score: 276
Period size: 29 Copynumber: 32.6 Consensus size: 29
861793 CCTCAAATTT
* * * *
861803 TCCAAAAA-TAACATTTTTGCCCTCGAACT
1 TCCAAAAATTACCA-TTTTACCCTCGAGCA
** * *
861832 TCCAAAAATTACCATTTTACCCTTAAACT
1 TCCAAAAATTACCATTTTACCCTCGAGCA
** * *
861861 TCC-AAAATTACCATTTTACCCTTAAACT
1 TCCAAAAATTACCATTTTACCCTCGAGCA
* * * *
861889 TCCAAAAATCA-CATTTTTGCCCTCGAACT
1 TCCAAAAATTACCA-TTTTACCCTCGAGCA
* * * * *
861918 TCCAATAATTACCATTTTTCCC-CTTACCT
1 TCCAAAAATTACCATTTTACCCTC-GAGCA
* * * *
861947 TTCAAAAATTA-CATTTTTAACCTCGAACT
1 TCCAAAAATTACCA-TTTTACCCTCGAGCA
** ** * * *
861976 TACCAAAAACCA-CATTTTTGCCTCCAAACT
1 T-CCAAAAATTACCATTTTACCCT-CGAGCA
***
862006 TCCAAAAATTACCATTTTACCCTCGAATG
1 TCCAAAAATTACCATTTTACCCTCGAGCA
* * * *
862035 TCCAAAAATTA-CATTTTTTATCC-CAAACTT
1 TCCAAAAATTACCA--TTTTACCCTCGAGC-A
* * * *
862065 TCCCAGAATTATCATTTTACCCTCGAACA
1 TCCAAAAATTACCATTTTACCCTCGAGCA
* * * *
862094 TTCTAAAATTACCATTTTACCC-CTTAACA
1 TCCAAAAATTACCATTTTACCCTC-GAGCA
***
862123 TCCAAAAATTACCATTTTACCC-CGAATG
1 TCCAAAAATTACCATTTTACCCTCGAGCA
* * * *
862151 TCCAAAAAATA-CATTTTTGACCCT-AAACTT
1 TCCAAAAATTACCA-TTTT-ACCCTCGAGC-A
* * * * * *
862181 TTCAAAAATTACCATTTTGCACTTGAACT
1 TCCAAAAATTACCATTTTACCCTCGAGCA
* ** * *
862210 TCCAAAAATTACCATTTTACTCTTAAACT
1 TCCAAAAATTACCATTTTACCCTCGAGCA
* * *
862239 TCCAAAAATCA-CATTTTTACCCTCGAACT
1 TCCAAAAATTACCA-TTTTACCCTCGAGCA
* * * *
862268 TCCAATAATTACCATTTTACCC-CTTACCT
1 TCCAAAAATTACCATTTTACCCTC-GAGCA
* * *
862297 TCCAAAAATT-CCATTTTAGACCTCGATCTT
1 TCCAAAAATTACCATTTTA-CCCTCGAGC-A
** * * * *
862327 TCCAAAAACCA-CATTTTTACCCCCAAACT
1 TCCAAAAATTACCA-TTTTACCCTCGAGCA
* **
862356 TCCAAAAATTATCATTTTACCCTCGAATA
1 TCCAAAAATTACCATTTTACCCTCGAGCA
** * * *
862385 TCCAAAAATTA-CATTTTTTCCTTGAACT
1 TCCAAAAATTACCATTTTACCCTCGAGCA
* **
862413 TCCTAAAATTA-CATTTTACCCTCGAATA
1 TCCAAAAATTACCATTTTACCCTCGAGCA
*
862441 TCCAAAAATTACCATTTTATCCCT-GAACA
1 TCCAAAAATTACCATTTTA-CCCTCGAGCA
* ***
862470 ACCAAAAATTACCATTTTACCC-CGAATG
1 TCCAAAAATTACCATTTTACCCTCGAGCA
*
862498 TCCAAAAGA-TA-CATTTTTGACCC-CGAGCTT
1 TCCAAAA-ATTACCA-TTTT-ACCCTCGAGC-A
** * * **
862528 TTTAAAAATTACTATTTT-CCCCCGAGTG
1 TCCAAAAATTACCATTTTACCCTCGAGCA
* ** * * * *
862556 TCCAAAAATTATCGCTTTACCTCCCAAACG
1 TCCAAAAATTACCATTTTACC-CTCGAGCA
* **
862586 TCCAAAAATTACCATTTTTACCC-CTGGGTG
1 TCCAAAAATTACCA-TTTTACCCTC-GAGCA
* * ** * ***
862616 TCTAAAATTTGTCGTTTTACCCTCGATTG
1 TCCAAAAATTACCATTTTACCCTCGAGCA
862645 TCTC-AAAATTACCATTTTACCCCTCGAGCA
1 TC-CAAAAATTACCATTTTA-CCCTCGAGCA
* * * *
862675 TCTAAAAATTA-CATTTTTACCC-CTAACT
1 TCCAAAAATTACCA-TTTTACCCTCGAGCA
* *
862703 TCCAAAAATTATCATTTTACCCTCGGGCA
1 TCCAAAAATTACCATTTTACCCTCGAGCA
862732 TCCAAAAATTA-CATTTT
1 TCCAAAAATTACCATTTT
862749 TGACTCTATT
Statistics
Matches: 712, Mismatches: 153, Indels: 105
0.73 0.16 0.11
Matches are distributed among these distances:
27 4 0.01
28 167 0.23
29 372 0.52
30 153 0.21
31 16 0.02
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (29 bp):
TCCAAAAATTACCATTTTACCCTCGAGCA
Found at i:865789 original size:14 final size:15
Alignment explanation
Indices: 865766--865805 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
865756 GATTTAGAGT
865766 TTAAGGGTTTGA-AG
1 TTAAGGGTTTGATAG
* *
865780 TTATGGGTTTGATAT
1 TTAAGGGTTTGATAG
865795 TTAAGGGTTTG
1 TTAAGGGTTTG
865806 GGTTATGGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.45
Consensus pattern (15 bp):
TTAAGGGTTTGATAG
Found at i:870663 original size:28 final size:28
Alignment explanation
Indices: 870629--870703 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 28
870619 AATTTCTAAG
* * *
870629 CCCAAACCCTAAATACTAAATTTAGAAT
1 CCCAAACCCTAAACACAAAATTTAGAAC
* * *
870657 CCTAAACTCTAAACCCAAAATTTAGAAC
1 CCCAAACCCTAAACACAAAATTTAGAAC
* *
870685 CCCAAATCCTAAACTCAAA
1 CCCAAACCCTAAACACAAA
870704 CCCAAAACCC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.47, C:0.29, G:0.03, T:0.21
Consensus pattern (28 bp):
CCCAAACCCTAAACACAAAATTTAGAAC
Found at i:870730 original size:41 final size:41
Alignment explanation
Indices: 870685--870774 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
870675 AATTTAGAAC
* *
870685 CCCAAATCCTAAACTCAAACCCAAAACCCCAAACCCTTAAA
1 CCCAAATCATAAACTCAAACCCAAAACCCCAAAACCTTAAA
* * ** *
870726 CCCAAATCATAAACTTAAATCTTAAACCTCAAAACCTTAAA
1 CCCAAATCATAAACTCAAACCCAAAACCCCAAAACCTTAAA
870767 CCCTAAAT
1 CCC-AAAT
870775 TTAAACATAG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 37 0.90
42 4 0.10
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (41 bp):
CCCAAATCATAAACTCAAACCCAAAACCCCAAAACCTTAAA
Found at i:871037 original size:17 final size:18
Alignment explanation
Indices: 871015--871050 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
871005 TTTATTTATA
871015 ATTTTAAG-AAATTAATT
1 ATTTTAAGTAAATTAATT
*
871032 ATTTTAAGTAATTTAATT
1 ATTTTAAGTAAATTAATT
871050 A
1 A
871051 AAGTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
ATTTTAAGTAAATTAATT
Found at i:872359 original size:30 final size:30
Alignment explanation
Indices: 872253--872397 Score: 120
Period size: 30 Copynumber: 4.8 Consensus size: 30
872243 GGAATTTGGG
*
872253 GGTCAAAATTGAAATTTTTGGAAAA-TTT-GT
1 GGTCAAAA-TGAAA-TTTTGGAAAAGTTTAGA
* * *
872283 GATTAAAATCAAACTTTTGGAAAA-TTT-GA
1 GGTCAAAATGAAA-TTTTGGAAAAGTTTAGA
** *
872312 GGTCGAAAATGTGATTTTGGAGAAGTTTAGA
1 GGTC-AAAATGAAATTTTGGAAAAGTTTAGA
*
872343 GGTCAAAATGCAATTTTGGAAAAGTTTA-A
1 GGTCAAAATGAAATTTTGGAAAAGTTTAGA
* *
872372 GGATAAAAATTAAATTTTGGAAAAGT
1 GG-TCAAAATGAAATTTTGGAAAAGT
872398 AAGTAATTTT
Statistics
Matches: 94, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
29 32 0.34
30 56 0.60
31 6 0.06
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (30 bp):
GGTCAAAATGAAATTTTGGAAAAGTTTAGA
Found at i:872434 original size:30 final size:29
Alignment explanation
Indices: 872400--872564 Score: 104
Period size: 30 Copynumber: 5.6 Consensus size: 29
872390 GGAAAAGTAA
872400 GTAATTTTAGAAAAGCTTGGGGGTCAAAAT
1 GTAATTTTAGAAAAG-TTGGGGGTCAAAAT
* * *
872430 GTAATTTTAGAAAA-TTGTAAGGGTTAAAGT
1 GTAATTTTAGAAAAGTTG--GGGGTCAAAAT
* * *
872460 GCAATTTTGGAAAAGTTTAGGGG-CTAAAAT
1 GTAATTTTAGAAAAG-TTGGGGGTC-AAAAT
* * * * * *
872490 TTAATTTTGGAAAATTTTTGAGGTTAAAAT
1 GTAATTTTAGAAAA-GTTGGGGGTCAAAAT
*
872520 GTAATTTTAGAAAAGTTCGAGGGTC-AAAT
1 GTAATTTTAGAAAAGTT-GGGGGTCAAAAT
* *
872549 -TTATTTTTGAAAAGTT
1 GTAATTTTAGAAAAGTT
872565 TAAGGACCTT
Statistics
Matches: 103, Mismatches: 24, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
28 17 0.17
29 6 0.06
30 78 0.76
32 2 0.02
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (29 bp):
GTAATTTTAGAAAAGTTGGGGGTCAAAAT
Found at i:872515 original size:60 final size:60
Alignment explanation
Indices: 872402--872536 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 60
872392 AAAAGTAAGT
* * *
872402 AATTTTAGAAAAGCTTGGGGGTCAAAATGTAATTTTAGAAAATTGTAAGGGTTAAAGTGC
1 AATTTTAGAAAAGTTTGGGGCTCAAAATGTAATTTTAGAAAATTGTAAGGGTTAAAATGC
* * * ** *
872462 AATTTTGGAAAAGTTTAGGGGCT-AAAATTTAATTTTGGAAAATT-TTTGAGGTTAAAATGT
1 AATTTTAGAAAAGTTT-GGGGCTCAAAATGTAATTTTAGAAAATTGTAAG-GGTTAAAATGC
872522 AATTTTAGAAAAGTT
1 AATTTTAGAAAAGTT
872537 CGAGGGTCAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
59 2 0.03
60 56 0.89
61 5 0.08
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (60 bp):
AATTTTAGAAAAGTTTGGGGCTCAAAATGTAATTTTAGAAAATTGTAAGGGTTAAAATGC
Found at i:873556 original size:4 final size:4
Alignment explanation
Indices: 873547--873573 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
873537 CAGTTACGAC
873547 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
873574 TATTTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:874148 original size:42 final size:40
Alignment explanation
Indices: 874077--874154 Score: 129
Period size: 42 Copynumber: 1.9 Consensus size: 40
874067 TATTTGTAAA
*
874077 TGGACTTTTAAATTTAAATAAATTTAAATTTAAAATGTAT
1 TGGACTTTAAAATTTAAATAAATTTAAATTTAAAATGTAT
874117 TGGACATTTAAAATTTAAAGTAAATTTAAATTTAAAAT
1 TGGAC-TTTAAAATTTAAA-TAAATTTAAATTTAAAAT
874155 TTGTCTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 5 0.14
41 12 0.34
42 18 0.51
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (40 bp):
TGGACTTTAAAATTTAAATAAATTTAAATTTAAAATGTAT
Found at i:874149 original size:17 final size:17
Alignment explanation
Indices: 874083--874152 Score: 61
Period size: 17 Copynumber: 3.7 Consensus size: 17
874073 TAAATGGACT
874083 TTTAAATTTAAA-TAAA
1 TTTAAATTTAAAGTAAA
874099 TTTAAATTTAAAATGTATTGGACA
1 TTTAAATTT-AAA-GTA----A-A
874123 TTTAAAATTTAAAGTAAA
1 TTT-AAATTTAAAGTAAA
874141 TTTAAATTTAAA
1 TTTAAATTTAAA
874153 ATTTGTCTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 17
0.73 0.00 0.27
Matches are distributed among these distances:
16 9 0.20
17 12 0.27
18 4 0.09
19 3 0.07
23 4 0.09
24 7 0.16
25 6 0.13
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (17 bp):
TTTAAATTTAAAGTAAA
Found at i:874762 original size:78 final size:77
Alignment explanation
Indices: 874633--874941 Score: 262
Period size: 78 Copynumber: 4.0 Consensus size: 77
874623 AAGATATTGG
*** * *
874633 ATGGTTGCAATCTACCCCT-GGCTCGGGGTAAGAGATTGGCTGACAATGATTTGCCCTATGATCA
1 ATGGTTGCAATCTA-CCCTAGGCTC-GGGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGATCA
874697 GGGTAAAAGATCGA
64 GGGTAAAAGATCGA
* * * *
874711 ATGGTTGCAATCTACCCTACGCTCTGGGTAAGAGATTGGCTGATGGTGATTTACCCCAAGCTCGG
1 ATGGTTGCAATCTACCCTAGGCTC-GGGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGATCAG
* *
874776 GGTAAGAGATCGG
65 GGTAAAAGATCGA
* * * * * *
874789 ATTGCTGCAATCTGCCCCAGGTTCGAGGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGCTC-G
1 ATGGTTGCAATCTACCCTAGGCTCG-GGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGATCAG
* * *
874853 AGGTAAGAGATTGG
65 -GGTAAAAGATCGA
** * * * * * * * * *
874867 ACAGCTGTAATCTTCCCCAGGTTCGAGGTAAGAGATTGGTTGATGGTGATTTACCCCAAGCTCGG
1 ATGGTTGCAATCTACCCTAGGCTCG-GGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGATCAG
*
874932 GGTAAGAGAT
65 GGTAAAAGAT
874942 TGGCTGATGG
Statistics
Matches: 201, Mismatches: 26, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
77 6 0.03
78 194 0.97
79 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (77 bp):
ATGGTTGCAATCTACCCTAGGCTCGGGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGATCAGG
GTAAAAGATCGA
Found at i:874858 original size:117 final size:117
Alignment explanation
Indices: 874737--874980 Score: 260
Period size: 117 Copynumber: 2.1 Consensus size: 117
874727 CTACGCTCTG
* * * *
874737 GGTAAGAGATTGG-CTGATGGTGAT-TTACCCCAAGCTCGGGGTAAGAGATCGGATTGCT-GCAA
1 GGTAAGAGATTGGACAGAT-GTAATCTT-CCCCAAGCTCGAGGTAAGAGATCGG-TTGATGGCAA
* * * *
874799 TCTGCCCCAGGTTCGAGGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGCTCGA
63 TCTACCCCAAGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGA
* * * * ** *
874854 GGTAAGAGATTGGACAGCTGTAATCTTCCCCAGGTTCGAGGTAAGAGATTGGTTGATGGTGATTT
1 GGTAAGAGATTGGACAGATGTAATCTTCCCCAAGCTCGAGGTAAGAGATCGGTTGATGGCAATCT
* * * *
874919 ACCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGG
66 ACCCCAAGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGA
*
874971 GGTAAAAGAT
1 GGTAAGAGAT
874981 CGGATGNNNN
Statistics
Matches: 104, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
116 4 0.04
117 95 0.91
118 5 0.05
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (117 bp):
GGTAAGAGATTGGACAGATGTAATCTTCCCCAAGCTCGAGGTAAGAGATCGGTTGATGGCAATCT
ACCCCAAGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGA
Found at i:874942 original size:78 final size:78
Alignment explanation
Indices: 874737--874944 Score: 344
Period size: 78 Copynumber: 2.7 Consensus size: 78
874727 CTACGCTCTG
* **
874737 GGTAAGAGATTGGCTGATGGTGATTTACCCCAAGCTCGGGGTAAGAGATCGGATTGCTGCAATCT
1 GGTAAGAGATTGGCTGATGGTGATTTACCCCAAGCTCGGGGTAAGAGATTGGACAGCTGCAATCT
874802 GCCCCAGGTTCGA
66 GCCCCAGGTTCGA
* * *
874815 GGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGCTCGAGGTAAGAGATTGGACAGCTGTAATCT
1 GGTAAGAGATTGGCTGATGGTGATTTACCCCAAGCTCGGGGTAAGAGATTGGACAGCTGCAATCT
*
874880 TCCCCAGGTTCGA
66 GCCCCAGGTTCGA
*
874893 GGTAAGAGATTGGTTGATGGTGATTTACCCCAAGCTCGGGGTAAGAGATTGG
1 GGTAAGAGATTGGCTGATGGTGATTTACCCCAAGCTCGGGGTAAGAGATTGG
874945 CTGATGGTGA
Statistics
Matches: 120, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 120 1.00
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (78 bp):
GGTAAGAGATTGGCTGATGGTGATTTACCCCAAGCTCGGGGTAAGAGATTGGACAGCTGCAATCT
GCCCCAGGTTCGA
Found at i:874969 original size:39 final size:39
Alignment explanation
Indices: 874731--874980 Score: 236
Period size: 39 Copynumber: 6.4 Consensus size: 39
874721 TCTACCCTAC
* * * *
874731 GCTCTGGGTAAGAGATTGGCTGATGGTGATTTACCCCAA
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAG
* * *
874770 GCTCGGGGTAAGAGATCGGAT--TGCTGCAATCTGCCCCAG
1 GCTCGGGGTAAGAGATTGGCTGATGGTG--ATCTGCCCCAG
* * * *
874809 GTTCGAGGTAAGAGATTGGCTGATGGTGATTTGCCCCAA
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAG
* * * * *
874848 GCTCGAGGTAAGAGATTGGACAGCT-GTAATCTTCCCCAG
1 GCTCGGGGTAAGAGATTGG-CTGATGGTGATCTGCCCCAG
* * * * * *
874887 GTTCGAGGTAAGAGATTGGTTGATGGTGATTTACCCCAA
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAG
*
874926 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAG
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAG
*
874965 GCTCGGGGTAAAAGAT
1 GCTCGGGGTAAGAGAT
874981 CGGATGNNNN
Statistics
Matches: 168, Mismatches: 37, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
37 4 0.02
38 2 0.01
39 155 0.92
40 3 0.02
41 4 0.02
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (39 bp):
GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAG
Found at i:874975 original size:78 final size:77
Alignment explanation
Indices: 874737--874980 Score: 303
Period size: 78 Copynumber: 3.1 Consensus size: 77
874727 CTACGCTCTG
* * *
874737 GGTAAGAGATTGGCTGATGGTGATTTACCCCAAGCTCGGGGTAAGAGATCGGAT-TGCTGCAATC
1 GGTAAGAGATTGGCTGATGGTGATTTACCCCAAGCTCGGGGTAAGAGATTGGCTGTGGTG--ATC
*
874801 TGCCCCAGGTTCGA
64 TGCCCCAGGCTCGA
* * * *
874815 GGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGCTCGAGGTAAGAGATTGGACAGCT-GTAATC
1 GGTAAGAGATTGGCTGATGGTGATTTACCCCAAGCTCGGGGTAAGAGATTGG-CTG-TGGTGATC
* *
874879 TTCCCCAGGTTCGA
64 TGCCCCAGGCTCGA
*
874893 GGTAAGAGATTGGTTGATGGTGATTTACCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCT
1 GGTAAGAGATTGGCTGATGGTGATTTACCCCAAGCTCGGGGTAAGAGATTGGCTG-TGGTGATCT
* *
874958 GCCCTAGGCTCGG
65 GCCCCAGGCTCGA
*
874971 GGTAAAAGAT
1 GGTAAGAGAT
874981 CGGATGNNNN
Statistics
Matches: 143, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
77 3 0.02
78 138 0.97
80 1 0.01
81 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (77 bp):
GGTAAGAGATTGGCTGATGGTGATTTACCCCAAGCTCGGGGTAAGAGATTGGCTGTGGTGATCTG
CCCCAGGCTCGA
Found at i:877718 original size:28 final size:28
Alignment explanation
Indices: 877684--877758 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 28
877674 AATTTCTAAG
* * *
877684 CCCAAACCCTAAATACTAAATTTAGAAT
1 CCCAAACCCTAAACACAAAATTTAGAAC
* * *
877712 CCTAAACTCTAAACCCAAAATTTAGAAC
1 CCCAAACCCTAAACACAAAATTTAGAAC
* *
877740 CCCAAATCCTAAACTCAAA
1 CCCAAACCCTAAACACAAA
877759 CCCAAAACCC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.47, C:0.29, G:0.03, T:0.21
Consensus pattern (28 bp):
CCCAAACCCTAAACACAAAATTTAGAAC
Found at i:877785 original size:41 final size:41
Alignment explanation
Indices: 877740--877829 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
877730 AATTTAGAAC
* *
877740 CCCAAATCCTAAACTCAAACCCAAAACCCCAAACCCTTAAA
1 CCCAAATCATAAACTCAAACCCAAAACCCCAAAACCTTAAA
* * ** *
877781 CCCAAATCATAAACTTAAATCTTAAACCTCAAAACCTTAAA
1 CCCAAATCATAAACTCAAACCCAAAACCCCAAAACCTTAAA
877822 CCCTAAAT
1 CCC-AAAT
877830 TTAAACATAG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 37 0.90
42 4 0.10
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (41 bp):
CCCAAATCATAAACTCAAACCCAAAACCCCAAAACCTTAAA
Found at i:878092 original size:17 final size:18
Alignment explanation
Indices: 878070--878105 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
878060 TTTATTTATA
878070 ATTTTAAG-AAATTAATT
1 ATTTTAAGTAAATTAATT
*
878087 ATTTTAAGTAATTTAATT
1 ATTTTAAGTAAATTAATT
878105 A
1 A
878106 AAGTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
ATTTTAAGTAAATTAATT
Found at i:879414 original size:30 final size:30
Alignment explanation
Indices: 879308--879452 Score: 120
Period size: 30 Copynumber: 4.8 Consensus size: 30
879298 GGAATTTGGG
*
879308 GGTCAAAATTGAAATTTTTGGAAAA-TTT-GT
1 GGTCAAAA-TGAAA-TTTTGGAAAAGTTTAGA
* * *
879338 GATTAAAATCAAACTTTTGGAAAA-TTT-GA
1 GGTCAAAATGAAA-TTTTGGAAAAGTTTAGA
** *
879367 GGTCGAAAATGTGATTTTGGAGAAGTTTAGA
1 GGTC-AAAATGAAATTTTGGAAAAGTTTAGA
*
879398 GGTCAAAATGCAATTTTGGAAAAGTTTA-A
1 GGTCAAAATGAAATTTTGGAAAAGTTTAGA
* *
879427 GGATAAAAATTAAATTTTGGAAAAGT
1 GG-TCAAAATGAAATTTTGGAAAAGT
879453 AAGTAATTTT
Statistics
Matches: 94, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
29 32 0.34
30 56 0.60
31 6 0.06
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (30 bp):
GGTCAAAATGAAATTTTGGAAAAGTTTAGA
Found at i:879489 original size:30 final size:29
Alignment explanation
Indices: 879455--879619 Score: 104
Period size: 30 Copynumber: 5.6 Consensus size: 29
879445 GGAAAAGTAA
879455 GTAATTTTAGAAAAGCTTGGGGGTCAAAAT
1 GTAATTTTAGAAAAG-TTGGGGGTCAAAAT
* * *
879485 GTAATTTTAGAAAA-TTGTAAGGGTTAAAGT
1 GTAATTTTAGAAAAGTTG--GGGGTCAAAAT
* * *
879515 GCAATTTTGGAAAAGTTTAGGGG-CTAAAAT
1 GTAATTTTAGAAAAG-TTGGGGGTC-AAAAT
* * * * * *
879545 TTAATTTTGGAAAATTTTTGAGGTTAAAAT
1 GTAATTTTAGAAAA-GTTGGGGGTCAAAAT
*
879575 GTAATTTTAGAAAAGTTCGAGGGTC-AAAT
1 GTAATTTTAGAAAAGTT-GGGGGTCAAAAT
* *
879604 -TTATTTTTGAAAAGTT
1 GTAATTTTAGAAAAGTT
879620 TAAGGACCTT
Statistics
Matches: 103, Mismatches: 24, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
28 17 0.17
29 6 0.06
30 78 0.76
32 2 0.02
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (29 bp):
GTAATTTTAGAAAAGTTGGGGGTCAAAAT
Found at i:879570 original size:60 final size:60
Alignment explanation
Indices: 879457--879591 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 60
879447 AAAAGTAAGT
* * *
879457 AATTTTAGAAAAGCTTGGGGGTCAAAATGTAATTTTAGAAAATTGTAAGGGTTAAAGTGC
1 AATTTTAGAAAAGTTTGGGGCTCAAAATGTAATTTTAGAAAATTGTAAGGGTTAAAATGC
* * * ** *
879517 AATTTTGGAAAAGTTTAGGGGCT-AAAATTTAATTTTGGAAAATT-TTTGAGGTTAAAATGT
1 AATTTTAGAAAAGTTT-GGGGCTCAAAATGTAATTTTAGAAAATTGTAAG-GGTTAAAATGC
879577 AATTTTAGAAAAGTT
1 AATTTTAGAAAAGTT
879592 CGAGGGTCAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
59 2 0.03
60 56 0.89
61 5 0.08
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (60 bp):
AATTTTAGAAAAGTTTGGGGCTCAAAATGTAATTTTAGAAAATTGTAAGGGTTAAAATGC
Found at i:880611 original size:4 final size:4
Alignment explanation
Indices: 880602--880628 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
880592 CAGTTACGAC
880602 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
880629 TATTTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:881203 original size:42 final size:40
Alignment explanation
Indices: 881132--881209 Score: 129
Period size: 42 Copynumber: 1.9 Consensus size: 40
881122 TATTTGTAAA
*
881132 TGGACTTTTAAATTTAAATAAATTTAAATTTAAAATGTAT
1 TGGACTTTAAAATTTAAATAAATTTAAATTTAAAATGTAT
881172 TGGACATTTAAAATTTAAAGTAAATTTAAATTTAAAAT
1 TGGAC-TTTAAAATTTAAA-TAAATTTAAATTTAAAAT
881210 TTGTCTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 5 0.14
41 12 0.34
42 18 0.51
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (40 bp):
TGGACTTTAAAATTTAAATAAATTTAAATTTAAAATGTAT
Found at i:881204 original size:17 final size:17
Alignment explanation
Indices: 881138--881207 Score: 61
Period size: 17 Copynumber: 3.7 Consensus size: 17
881128 TAAATGGACT
881138 TTTAAATTTAAA-TAAA
1 TTTAAATTTAAAGTAAA
881154 TTTAAATTTAAAATGTATTGGACA
1 TTTAAATTT-AAA-GTA----A-A
881178 TTTAAAATTTAAAGTAAA
1 TTT-AAATTTAAAGTAAA
881196 TTTAAATTTAAA
1 TTTAAATTTAAA
881208 ATTTGTCTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 17
0.73 0.00 0.27
Matches are distributed among these distances:
16 9 0.20
17 12 0.27
18 4 0.09
19 3 0.07
23 4 0.09
24 7 0.16
25 6 0.13
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (17 bp):
TTTAAATTTAAAGTAAA
Found at i:881817 original size:78 final size:77
Alignment explanation
Indices: 881688--881996 Score: 262
Period size: 78 Copynumber: 4.0 Consensus size: 77
881678 AAGATATTGG
*** * *
881688 ATGGTTGCAATCTACCCCT-GGCTCGGGGTAAGAGATTGGCTGACAATGATTTGCCCTATGATCA
1 ATGGTTGCAATCTA-CCCTAGGCTC-GGGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGATCA
881752 GGGTAAAAGATCGA
64 GGGTAAAAGATCGA
* * * *
881766 ATGGTTGCAATCTACCCTACGCTCTGGGTAAGAGATTGGCTGATGGTGATTTACCCCAAGCTCGG
1 ATGGTTGCAATCTACCCTAGGCTC-GGGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGATCAG
* *
881831 GGTAAGAGATCGG
65 GGTAAAAGATCGA
* * * * * *
881844 ATTGCTGCAATCTGCCCCAGGTTCGAGGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGCTC-G
1 ATGGTTGCAATCTACCCTAGGCTCG-GGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGATCAG
* * *
881908 AGGTAAGAGATTGG
65 -GGTAAAAGATCGA
** * * * * * * * * *
881922 ACAGCTGTAATCTTCCCCAGGTTCGAGGTAAGAGATTGGTTGATGGTGATTTACCCCAAGCTCGG
1 ATGGTTGCAATCTACCCTAGGCTCG-GGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGATCAG
*
881987 GGTAAGAGAT
65 GGTAAAAGAT
881997 TGGCTGATGG
Statistics
Matches: 201, Mismatches: 26, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
77 6 0.03
78 194 0.97
79 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (77 bp):
ATGGTTGCAATCTACCCTAGGCTCGGGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGATCAGG
GTAAAAGATCGA
Found at i:881821 original size:39 final size:39
Alignment explanation
Indices: 881775--882269 Score: 349
Period size: 39 Copynumber: 12.7 Consensus size: 39
881765 AATGGTTGCA
* * *
881775 ATCTACCCTACGCTCTGGGTAAGAGATTGGCTGATGGTG
1 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * * *
881814 ATTTACCCCAAGCTCGGGGTAAGAGATCGGAT--TGCTG
1 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* * *
881851 CAATCTGCCCCAGGTTCGAGGTAAGAGATTGGCTGATGGTG
1 --ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * * * * *
881892 ATTTGCCCCAAGCTCGAGGTAAGAGATTGGACAGCT-GTA
1 ATCTACCCCAGGCTCGGGGTAAGAGATTGG-CTGATGGTG
* * * *
881931 ATCTTCCCCAGGTTCGAGGTAAGAGATTGGTTGATGGTG
1 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* *
881970 ATTTACCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * * * *
882009 ATCTGCCCTAGGCTCGGGGTAAAAGATCGGATGACT-GTA
1 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGA-TGGTG
*
882048 ATCTACCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * * * * * **
882087 ATCTGCCCTAGGCTCGGGGTAAAAGATCGGATGGTTGCA
1 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* ** * *
882126 ATCTGCCTTAGGCTCAGGGTAAGACATTGGCTGATGGTG
1 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * *
882165 ATCTGCCCCAGGCTTGGGGTAAAAGA-T--C-GAATGGCTACA
1 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTG-ATGG-T--G
* * *
882204 ATCTGCCCTAGGCTCGGGGTAAGAGATTGGTTGATGGTG
1 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
* * ***
882243 ATCTGCCTCATAATCGGGGTAAGAGAT
1 ATCTACCCCAGGCTCGGGGTAAGAGAT
882270 CGGAATCTTC
Statistics
Matches: 357, Mismatches: 83, Indels: 32
0.76 0.18 0.07
Matches are distributed among these distances:
35 1 0.00
36 5 0.01
37 5 0.01
38 4 0.01
39 327 0.92
40 5 0.01
41 5 0.01
42 4 0.01
43 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (39 bp):
ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
Found at i:882030 original size:78 final size:78
Alignment explanation
Indices: 881786--882249 Score: 393
Period size: 78 Copynumber: 5.9 Consensus size: 78
881776 TCTACCCTAC
* * * * * *
881786 GCTCTGGGTAAGAGATTGGCTGATGGTGATTTACCCCAAGCTCGGGGTAAGAGATCGGAT--TGC
1 GCTCGGGGTAAAAGATTGGATGATGGTGATTTACCCCAAGCTCGGGGTAAGAGATTGGCTGATGG
881849 TGCAATCTGCCCCAG
66 TG--ATCTGCCCCAG
* * * * * * * *
881864 GTTCGAGGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGCTCGAGGTAAGAGATTGGACAGCT-
1 GCTCGGGGTAAAAGATTGGATGATGGTGATTTACCCCAAGCTCGGGGTAAGAGATTGG-CTGATG
* *
881928 GTAATCTTCCCCAG
65 GTGATCTGCCCCAG
* * * *
881942 GTTCGAGGTAAGAGATTGGTTGATGGTGATTTACCCCAAGCTCGGGGTAAGAGATTGGCTGATGG
1 GCTCGGGGTAAAAGATTGGATGATGGTGATTTACCCCAAGCTCGGGGTAAGAGATTGGCTGATGG
*
882007 TGATCTGCCCTAG
66 TGATCTGCCCCAG
* * * * *
882020 GCTCGGGGTAAAAGATCGGATGACT-GTAATCTACCCTAGGCTCGGGGTAAGAGATTGGCTGATG
1 GCTCGGGGTAAAAGATTGGATGA-TGGTGATTTACCCCAAGCTCGGGGTAAGAGATTGGCTGATG
*
882084 GTGATCTGCCCTAG
65 GTGATCTGCCCCAG
* * * ** * * ** * * *
882098 GCTCGGGGTAAAAGATCGGATGGTTGCAATCTGCCTTAGGCTCAGGGTAAGACATTGGCTGATGG
1 GCTCGGGGTAAAAGATTGGATGATGGTGATTTACCCCAAGCTCGGGGTAAGAGATTGGCTGATGG
882163 TGATCTGCCCCAG
66 TGATCTGCCCCAG
* * * * * * * *
882176 GCTTGGGGTAAAAGA-TCGA--ATGGCTACAATCTGCCCTAGGCTCGGGGTAAGAGATTGGTTGA
1 GCTCGGGGTAAAAGATTGGATGATGG-T--GATTTACCCCAAGCTCGGGGTAAGAGATTGGCTGA
882238 TGGTGATCTGCC
63 TGGTGATCTGCC
882250 TCATAATCGG
Statistics
Matches: 332, Mismatches: 45, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
75 2 0.01
77 6 0.02
78 321 0.97
79 1 0.00
80 1 0.00
81 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (78 bp):
GCTCGGGGTAAAAGATTGGATGATGGTGATTTACCCCAAGCTCGGGGTAAGAGATTGGCTGATGG
TGATCTGCCCCAG
Found at i:882260 original size:156 final size:155
Alignment explanation
Indices: 881981--882273 Score: 444
Period size: 156 Copynumber: 1.9 Consensus size: 155
881971 TTTACCCCAA
* * * * *
881981 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAAAGATCGGATGACTG
1 GCTCAGGGTAAGACATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAAAGATCGAATGACTA
* *
882046 TAATCTACCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAAA
66 CAATCTACCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTA-GATCGGGGTAAAA
882111 GATCGGATGGTTGCAATCTGCCTTAG
130 GATCGGATGGTTGCAATCTGCCTTAG
* *
882137 GCTCAGGGTAAGACATTGGCTGATGGTGATCTGCCCCAGGCTTGGGGTAAAAGATCGAATGGCTA
1 GCTCAGGGTAAGACATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAAAGATCGAATGACTA
* * *
882202 CAATCTGCCCTAGGCTCGGGGTAAGAGATTGGTTGATGGTGATCTGCCTCATA-ATCGGGGTAAG
66 CAATCTACCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCC-C-TAGATCGGGGTAAA
882266 AGATCGGA
129 AGATCGGA
882274 ATCTTCAATC
Statistics
Matches: 123, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
156 120 0.98
157 1 0.01
158 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (155 bp):
GCTCAGGGTAAGACATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAAAGATCGAATGACTA
CAATCTACCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGATCGGGGTAAAAG
ATCGGATGGTTGCAATCTGCCTTAG
Found at i:882262 original size:78 final size:77
Alignment explanation
Indices: 881981--882289 Score: 399
Period size: 78 Copynumber: 4.0 Consensus size: 77
881971 TTTACCCCAA
* *
881981 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAAAGATCGGATGACTG
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTA-GCTCGGGGTAAAAGATCGAATGGCTG
* *
882046 TAATCTACCCTAG
65 CAATCTGCCCTAG
* *
882059 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAAAGATCGGATGGTTG
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTA-GCTCGGGGTAAAAGATCGAATGGCTG
*
882124 CAATCTGCCTTAG
65 CAATCTGCCCTAG
* * * * *
882137 GCTCAGGGTAAGACATTGGCTGATGGTGATCTGCCCCAGGCTTGGGGTAAAAGATCGAATGGCTA
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTA-GCTCGGGGTAAAAGATCGAATGGCTG
882202 CAATCTGCCCTAG
65 CAATCTGCCCTAG
* * *
882215 GCTCGGGGTAAGAGATTGGTTGATGGTGATCTGCCTCATA-ATCGGGGTAAGAGATCGGAAT--C
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCC-C-TAGCTCGGGGTAAAAGATC-GAATGGC
*
882277 TTCAATCTGCCCT
63 TGCAATCTGCCCT
882290 TCTTGATTAA
Statistics
Matches: 207, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
77 13 0.06
78 188 0.91
79 5 0.02
80 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (77 bp):
GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGCTCGGGGTAAAAGATCGAATGGCTGC
AATCTGCCCTAG
Found at i:897515 original size:30 final size:29
Alignment explanation
Indices: 897476--897977 Score: 344
Period size: 30 Copynumber: 17.1 Consensus size: 29
897466 CCCAAAAGGT
*
897476 CCCT-AACTTTATAAAAATTACATTTTGAC
1 CCCTAAACTTT-TAAAAATTACATTTTAAC
* *
897505 CCCTAAACTTTCCAAAAATCACATTTTAAC
1 CCCTAAACTTT-TAAAAATTACATTTTAAC
** *
897535 CCCTAAACTTTCCAAAACTACATTTTAAC
1 CCCTAAACTTTTAAAAATTACATTTTAAC
* * *
897564 CCCTAAATTTTCTTAAAATCACATTTT---
1 CCCTAAACTTT-TAAAAATTACATTTTAAC
* * * *
897591 CCCT-TACTTTTAAAAAATTTCATTTTGAT
1 CCCTAAACTTTT-AAAAATTACATTTTAAC
* *
897620 CCC-AAACTTTCCAAAAATCACATTTTAAC
1 CCCTAAACTTT-TAAAAATTACATTTTAAC
* * * *
897649 ACCTAAACTTTTCTAAAATTAAAATTTAAC
1 CCCTAAACTTTT-AAAAATTACATTTTAAC
* *
897679 CCCTAAACTTTCCAAAAATCACATTTTAA-
1 CCCTAAACTTT-TAAAAATTACATTTTAAC
* * *
897708 CCCTAAATTTTTCTAAAATTAAATTTTAAC
1 CCCTAAACTTTT-AAAAATTACATTTTAAC
* * *
897738 CACTAAACTTTTCAAAAATTACATTTAAAA
1 CCCTAAACTTTT-AAAAATTACATTTTAAC
** *
897768 CCCTAAACTTCTCCAAAATTACATTTTAAT
1 CCCTAAACTT-TTAAAAATTACATTTTAAC
*
897798 CCCTAAACTTTTCCAAAATTACATTTTAA-
1 CCCTAAACTTTT-AAAAATTACATTTTAAC
* * * *
897827 CCATCAAGCTTTTCTAAAATTACATTTTAAT
1 CCCT-AAACTTTT-AAAAATTACATTTTAAC
** *
897858 CCCT-AACTTCTCCAAAATTACGTTTTAAC
1 CCCTAAACTT-TTAAAAATTACATTTTAAC
* *
897887 CCTTAAACTTCTCT-AAAATCACATTTTAAC
1 CCCTAAACTT-T-TAAAAATTACATTTTAAC
* *
897917 CCTTAAACCTTCTT-AAAATCACATTTTAA-
1 CCCTAAA-CTT-TTAAAAATTACATTTTAAC
* * *
897946 CCCTAAACCTTCTCAAAATCACATTTTAAC
1 CCCTAAA-CTTTTAAAAATTACATTTTAAC
897976 CC
1 CC
897978 AAAATTTCTG
Statistics
Matches: 383, Mismatches: 67, Indels: 45
0.77 0.14 0.09
Matches are distributed among these distances:
25 1 0.00
26 15 0.04
27 4 0.01
28 1 0.00
29 125 0.33
30 228 0.60
31 9 0.02
ACGTcount: A:0.38, C:0.25, G:0.01, T:0.36
Consensus pattern (29 bp):
CCCTAAACTTTTAAAAATTACATTTTAAC
Done.