Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3329
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: 1261902
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
File 2 of 4
Found at i:452021 original size:22 final size:22
Alignment explanation
Indices: 451972--452022 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
451962 ATAATAACAA
* *
451972 CAAAATAGTAGCAATATAATAG
1 CAAAATAGTAGCAAAACAATAG
* * *
451994 CGAAATGGTAGCAAAACAATGG
1 CAAAATAGTAGCAAAACAATAG
452016 CAAAATA
1 CAAAATA
452023 ATAATAGTTT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.18
Consensus pattern (22 bp):
CAAAATAGTAGCAAAACAATAG
Found at i:455142 original size:9 final size:9
Alignment explanation
Indices: 455123--455152 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
455113 CGTCCCATCG
455123 CTGCT-CAC
1 CTGCTCCAC
455131 CTGCTCCAC
1 CTGCTCCAC
455140 CTGCTCCAC
1 CTGCTCCAC
455149 CTGC
1 CTGC
455153 AAAGAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.10, C:0.53, G:0.13, T:0.23
Consensus pattern (9 bp):
CTGCTCCAC
Found at i:461344 original size:7 final size:8
Alignment explanation
Indices: 461323--461352 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
461313 TCTCATGAAT
461323 TCAAAAAA
1 TCAAAAAA
461331 TCAAAAAA
1 TCAAAAAA
461339 TCAAAAAAA
1 TC-AAAAAA
461348 TCAAA
1 TCAAA
461353 GTCAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (8 bp):
TCAAAAAA
Found at i:463541 original size:44 final size:44
Alignment explanation
Indices: 463492--463718 Score: 160
Period size: 44 Copynumber: 5.2 Consensus size: 44
463482 AGTTAAAGAT
463492 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * ** * * * * *
463536 CTTGCC-TCTTTCGGTTGTGATG-G-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTCCTGC-ATTGACA-GCGAAGCAGATCGAAGACACAA-AC
*
463580 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * ** * * * * *
463624 CTTGCC-TCTTTCGGTTGTGATG-G-AGCTGGTCGAAGATAAAAGAT
1 CTTGCCTTCCTGC-ATTGACA-GCGAAGCAGATCGAAGACACAA-AC
*
463668 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
463712 CTTGCCT
1 CTTGCCT
463719 CTTTCGGTTG
Statistics
Matches: 128, Mismatches: 43, Indels: 24
0.66 0.22 0.12
Matches are distributed among these distances:
43 37 0.29
44 55 0.43
45 36 0.28
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (44 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
Found at i:463635 original size:88 final size:88
Alignment explanation
Indices: 463486--463878 Score: 580
Period size: 88 Copynumber: 4.5 Consensus size: 88
463476 CAATGAAGTT
463486 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
463551 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
463574 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
* *
463639 TGTGATGGAGCTGGTCGAAGATA
66 TGTGATGGAGCTGGTTGAAGACA
*
463662 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
463727 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * **
463750 AAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCAC-CCATCG
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGC-CTCTTTCG
* * * *
463812 ATTG-CAGTGGAGCTAGTTAAAGA-A
64 GTTGTGA-TGGAGCTGGTTGAAGACA
** * *
463836 GTAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGA
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGA
463879 TAGTAATCCT
Statistics
Matches: 283, Mismatches: 18, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
86 44 0.16
87 29 0.10
88 210 0.74
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.24
Consensus pattern (88 bp):
AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
TGTGATGGAGCTGGTTGAAGACA
Found at i:463760 original size:44 final size:44
Alignment explanation
Indices: 463522--463762 Score: 176
Period size: 43 Copynumber: 5.5 Consensus size: 44
463512 GCGAAGCAGA
* *
463522 TCGAAGACACAA-ACCTTGCCTCTTTCGGTTGTGATGGAGCTGG
1 TCGAAGACAAAAGATCTTGCCTCTTTCGGTTGTGATGGAGCTGG
* ** * * *
463565 TTGAAGACAAAAGATCTTG-C-CTTTCTGCAT-TGACAGCGAAGCAGA
1 TCGAAGACAAAAGATCTTGCCTCTTTC-GGTTGTGA-TG-G-AGCTGG
* *
463610 TCGAAGACACAA-ACCTTGCCTCTTTCGGTTGTGATGGAGCTGG
1 TCGAAGACAAAAGATCTTGCCTCTTTCGGTTGTGATGGAGCTGG
* ** * * *
463653 TCGAAGATAAAAGATCTTG-C-CTTTCTGCAT-TGACAGCGAAGCAGA
1 TCGAAGACAAAAGATCTTGCCTCTTTC-GGTTGTGA-TG-G-AGCTGG
* *
463698 TCGAAGACACAA-ACCTTGCCTCTTTCGGTTGTGATGGAGCTGG
1 TCGAAGACAAAAGATCTTGCCTCTTTCGGTTGTGATGGAGCTGG
*
463741 TTGAAGACAAAAGATCTTGCCT
1 TCGAAGACAAAAGATCTTGCCT
463763 TCCTACATTA
Statistics
Matches: 146, Mismatches: 35, Indels: 33
0.68 0.16 0.15
Matches are distributed among these distances:
42 16 0.11
43 46 0.32
44 32 0.22
45 36 0.25
46 16 0.11
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (44 bp):
TCGAAGACAAAAGATCTTGCCTCTTTCGGTTGTGATGGAGCTGG
Found at i:463971 original size:41 final size:41
Alignment explanation
Indices: 463924--464552 Score: 244
Period size: 41 Copynumber: 14.7 Consensus size: 41
463914 GATTAAAGGA
* * *
463924 TCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGAAGATCAAATCAGG
* *
463965 TCTTATCTCCCTG-AGATTACAGTGGA-ACAGACCGAAGAATCGCAGA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGA-AGATC--A-AAT--CAGG
* * * * **
464011 TCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAA
1 TCTTATCTCCCTGAAGTTACAGTGGAGAAGATC-AA-ATCA-GG
* ** * *
464054 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGAAGA-TCAAAT-CAGG
* * *
464097 ATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGG
1 -TCTTATCTCCCTGAAGTTACAGTGGAGAAGATCAAATCAGG
* *
464139 TCTTATCTCCCTG-AGATTACAGTGGA-ACAGACCGAAGAATCGCAGA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGA-AGATC--A-AAT--CAGG
* * * * *
464185 TCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCAAAGAT-AGTAA
1 TCTTATCTCCCTGAAGTTACAGTGGAGAAGATC-AA-ATCAG--G
* * * ** *
464229 TCCTATCTCCTTG-AGATTACAATGGAGCGGAT-TAA--AGG
1 TCTTATCTCCCTGAAG-TTACAGTGGAGAAGATCAAATCAGG
* * *
464267 ATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGG
1 -TCTTATCTCCCTGAAGTTACAGTGGAGAAGATCAAATCAGG
* *
464309 TCTTATCTCCCTG-AGATTACAGTGGA-ACAGACCGAAGAATCGCAGA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGA-AGATC--A-AAT--CAGG
* * * * **
464355 TCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAA
1 TCTTATCTCCCTGAAGTTACAGTGGAGAAGATC-AA-ATCA-GG
* ** * *
464398 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGAAGA-TCAAAT-CAGG
* * * *
464441 ATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGA
1 -TCTTATCTCCCTGAAGTTACAGTGGAGAAGATCAAATCAGG
* * * **
464483 TCTTATCTCCCCG-AGATTACAGCGGAGCAGATCGAAGA-CACTA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGAAGATC-AA-ATCA-GG
*
464526 TCCTATCTCCCTGAAGTTACAGTGGAG
1 TCTTATCTCCCTGAAGTTACAGTGGAG
464553 TGGGTTAAAA
Statistics
Matches: 440, Mismatches: 95, Indels: 104
0.69 0.15 0.16
Matches are distributed among these distances:
39 22 0.05
40 16 0.04
41 101 0.23
42 20 0.05
43 93 0.21
44 91 0.21
45 10 0.02
46 84 0.19
47 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (41 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGAAGATCAAATCAGG
Found at i:464100 original size:87 final size:86
Alignment explanation
Indices: 463859--464463 Score: 406
Period size: 87 Copynumber: 7.0 Consensus size: 86
463849 TCCTGCATTA
* * *
463859 ACAGCGAAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGA-T----TA
1 ACAGCGGAGCAGATC-AAGATA-TAATCCTATCTCCCTGAGATTACAGTGGAGCGGACTAAAATA
*
463919 AAGGATCTTATCTCTCTGAAGTT
64 AAGGATCTTATCTCCCTGAAGTT
** * * ** * * * *
463942 ACAGTAGAGAAGATC-ACATCA-GGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAAT
1 ACAGCGGAGCAGATCAAGAT-ATAATCCTATCTCCCTGAGATTACAGTGGAGCGGA-CTAA-AAT
** * *
464005 CGCA-GATCTTGTCTCCCTGAGGTT
63 -AAAGGATCTTATCTCCCTGAAGTT
*
464029 ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATA
1 ACAGCGGAGCAGATC-AAGATATAATCCTATCTCCCTGAGA-TTACAGTGGAGCGGACTAAAATA
*
464093 AAGGATCTTATCTCTCTGAAGTT
64 AAGGATCTTATCTCCCTGAAGTT
** * * ** * * * *
464116 ACAGTAGAGAAGATC-ACATCA-GGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAAT
1 ACAGCGGAGCAGATCAAGAT-ATAATCCTATCTCCCTGAGATTACAGTGGAGCGGA-CTAA-AAT
** * *
464179 CGCA-GATCTTGTCTCCCTGAGGTT
63 -AAAGGATCTTATCTCCCTGAAGTT
* *
464203 ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGA-T----TA
1 ACAGCGGAGCAGATC-AAGATA-TAATCCTATCTCCCTGAGATTACAGTGGAGCGGACTAAAATA
*
464263 AAGGATCTTATCTCTCTGAAGTT
64 AAGGATCTTATCTCCCTGAAGTT
** * * ** * * * *
464286 ACAGTAGAGAAGATC-ACATCA-GGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAAT
1 ACAGCGGAGCAGATCAAGAT-ATAATCCTATCTCCCTGAGATTACAGTGGAGCGGA-CTAA-AAT
** * *
464349 CGCA-GATCTTGTCTCCCTGAGGTT
63 -AAAGGATCTTATCTCCCTGAAGTT
*
464373 ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATA
1 ACAGCGGAGCAGATC-AAGATATAATCCTATCTCCCTGAGA-TTACAGTGGAGCGGACTAAAATA
*
464437 AAGGATCTTATCTCTCTGAAGTT
64 AAGGATCTTATCTCCCTGAAGTT
464460 ACAG
1 ACAG
464464 TAGAGAAGAT
Statistics
Matches: 384, Mismatches: 100, Indels: 72
0.69 0.18 0.13
Matches are distributed among these distances:
80 52 0.14
81 6 0.02
82 3 0.01
83 41 0.11
85 29 0.08
86 6 0.02
87 148 0.39
88 12 0.03
89 61 0.16
90 26 0.07
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (86 bp):
ACAGCGGAGCAGATCAAGATATAATCCTATCTCCCTGAGATTACAGTGGAGCGGACTAAAATAAA
GGATCTTATCTCCCTGAAGTT
Found at i:464291 original size:344 final size:344
Alignment explanation
Indices: 463859--464520 Score: 1270
Period size: 344 Copynumber: 1.9 Consensus size: 344
463849 TCCTGCATTA
463859 ACAGCGAAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAGGA
1 ACAGCGAAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAGGA
463924 TCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTG
66 TCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTG
463989 GAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAA
131 GAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAA
464054 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
196 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
* * *
464119 GTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATCGCAG
261 GTAGAGAAGATCACATCAGATCTTATCTCCCCGAGATTACAGCGGAACAGACCGAAGAATCGCAG
464184 ATCTTGTCTCCCTGAGGTT
326 ATCTTGTCTCCCTGAGGTT
*
464203 ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAGGA
1 ACAGCGAAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAGGA
464268 TCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTG
66 TCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTG
464333 GAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAA
131 GAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAA
464398 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
196 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
* *
464463 GTAGAGAAGATCACATCAGATCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAGA
261 GTAGAGAAGATCACATCAGATCTTATCTCCCCGAGATTACAGCGGAACAGACCGAAGA
464521 CACTATCCTA
Statistics
Matches: 312, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
344 312 1.00
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (344 bp):
ACAGCGAAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAGGA
TCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTG
GAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAA
TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
GTAGAGAAGATCACATCAGATCTTATCTCCCCGAGATTACAGCGGAACAGACCGAAGAATCGCAG
ATCTTGTCTCCCTGAGGTT
Found at i:464373 original size:170 final size:171
Alignment explanation
Indices: 463859--464520 Score: 1084
Period size: 174 Copynumber: 3.8 Consensus size: 171
463849 TCCTGCATTA
* *
463859 ACAGCGAAGCAGATCAAAGATAGTAATCCTATCTCCTTG-AGATTACAATGGAGCGGA-T-TAAA
1 ACAGCGGAGCAGATCAAAGATA-TAATCCTATCTCCCTGAAG-TTACAATGGAGCGGATTATAAA
463921 GGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACA
64 GGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACA
463986 GTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
129 GTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
* *
464029 ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
1 ACAGCGGAGCAGATCAAAGATATAATCCTATCTCCCTGAAGTTACAATGGAGCGGATT---ATAA
464094 AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTAC
63 AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTAC
464159 AGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
128 AGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
*
464203 ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTG-AGATTACAATGGAGCGGA-T-TAAA
1 ACAGCGGAGCAGATCAAAGATA-TAATCCTATCTCCCTGAAG-TTACAATGGAGCGGATTATAAA
464265 GGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACA
64 GGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACA
464330 GTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
129 GTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
* *
464373 ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
1 ACAGCGGAGCAGATCAAAGATATAATCCTATCTCCCTGAAGTTACAATGGAGCGGATT---ATAA
* *
464438 AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGATCTTATCTCCCCGAGATTAC
63 AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTAC
* * *
464503 AGCGGAGCAGATCGAAGA
128 AGTGGAACAGACCGAAGA
464521 CACTATCCTA
Statistics
Matches: 463, Mismatches: 15, Indels: 24
0.92 0.03 0.05
Matches are distributed among these distances:
169 58 0.13
170 159 0.34
174 217 0.47
175 29 0.06
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (171 bp):
ACAGCGGAGCAGATCAAAGATATAATCCTATCTCCCTGAAGTTACAATGGAGCGGATTATAAAGG
ATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGT
GGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
Found at i:464503 original size:128 final size:128
Alignment explanation
Indices: 464351--464596 Score: 404
Period size: 128 Copynumber: 1.9 Consensus size: 128
464341 CGAAGAATCG
* * * *
464351 CAGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATA-TAATCCTATCTCCCTGAAGT
1 CAGATCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGAAGT
*
464415 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACAT
65 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACAT
464479 CAGATCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTT
1 CAGATCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTT
* * *
464544 ACAGTGGAGTGGGTTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAG
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAG
464597 TAGGCCGCAT
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
128 108 0.99
129 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (128 bp):
CAGATCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTT
ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACAT
Found at i:465003 original size:9 final size:9
Alignment explanation
Indices: 464984--465013 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
464974 CGTCCCATCG
464984 CTGCT-CAC
1 CTGCTCCAC
464992 CTGCTCCAC
1 CTGCTCCAC
465001 CTGCTCCAC
1 CTGCTCCAC
465010 CTGC
1 CTGC
465014 AAAGAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.10, C:0.53, G:0.13, T:0.23
Consensus pattern (9 bp):
CTGCTCCAC
Found at i:471784 original size:14 final size:14
Alignment explanation
Indices: 471765--471792 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
471755 AAAAAAAAAT
471765 GTACCACTTAGTAA
1 GTACCACTTAGTAA
471779 GTACCACTTAGTAA
1 GTACCACTTAGTAA
471793 AACTAATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (14 bp):
GTACCACTTAGTAA
Found at i:471953 original size:48 final size:48
Alignment explanation
Indices: 471898--471995 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
471888 TTTTTGTATA
*
471898 TTAGATTAAAAGAGTAAATTAGTCATTGTTATTAAAAAATTCATCAAC
1 TTAGATTAAAAGAGTAAATTAGTCATTCTTATTAAAAAATTCATCAAC
471946 TTAGATTAAAAGAGTAAATTAGTCATTCTTATTAAAAAATTCATCAAC
1 TTAGATTAAAAGAGTAAATTAGTCATTCTTATTAAAAAATTCATCAAC
471994 TT
1 TT
471996 CTACTACTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (48 bp):
TTAGATTAAAAGAGTAAATTAGTCATTCTTATTAAAAAATTCATCAAC
Found at i:473986 original size:67 final size:67
Alignment explanation
Indices: 473878--474015 Score: 276
Period size: 67 Copynumber: 2.1 Consensus size: 67
473868 TATACTGGTC
473878 AATATGAGCAGATGGTATCTGCAATATACATGGAAAATCATACTTTCATGTGTTATAAATAGAGT
1 AATATGAGCAGATGGTATCTGCAATATACATGGAAAATCATACTTTCATGTGTTATAAATAGAGT
473943 GA
66 GA
473945 AATATGAGCAGATGGTATCTGCAATATACATGGAAAATCATACTTTCATGTGTTATAAATAGAGT
1 AATATGAGCAGATGGTATCTGCAATATACATGGAAAATCATACTTTCATGTGTTATAAATAGAGT
474010 GA
66 GA
474012 AATA
1 AATA
474016 AGGCAACCTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 71 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (67 bp):
AATATGAGCAGATGGTATCTGCAATATACATGGAAAATCATACTTTCATGTGTTATAAATAGAGT
GA
Found at i:492782 original size:13 final size:13
Alignment explanation
Indices: 492764--492804 Score: 82
Period size: 13 Copynumber: 3.2 Consensus size: 13
492754 TTTTATAGAT
492764 TGTAGCATCACAA
1 TGTAGCATCACAA
492777 TGTAGCATCACAA
1 TGTAGCATCACAA
492790 TGTAGCATCACAA
1 TGTAGCATCACAA
492803 TG
1 TG
492805 AGTAGCCCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (13 bp):
TGTAGCATCACAA
Found at i:498694 original size:7 final size:7
Alignment explanation
Indices: 498684--498709 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
498674 TTTTTTGTTT
498684 TTTTAAA
1 TTTTAAA
498691 TTTTAAA
1 TTTTAAA
498698 TTTTAAA
1 TTTTAAA
498705 TTTTA
1 TTTTA
498710 GTCCTTACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTTTAAA
Found at i:505888 original size:8 final size:8
Alignment explanation
Indices: 505837--505863 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
505827 TAATTTAATT
505837 TATTAAAA
1 TATTAAAA
505845 TATTAAAA
1 TATTAAAA
505853 TATTAAAA
1 TATTAAAA
505861 TAT
1 TAT
505864 CTTATAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TATTAAAA
Found at i:508243 original size:200 final size:200
Alignment explanation
Indices: 507866--508392 Score: 727
Period size: 200 Copynumber: 2.6 Consensus size: 200
507856 AATTATAGGA
* * * *
507866 TTTCTAGGTTGATTGCTTGGCCTAGTTG-TTTCGAATCTAGTGTTTGATATCTATATTGCTTGTA
1 TTTCTAGGTTGATTGCTTGGCCTAGTTGCTAT-GAATCTAGTGCTTGATATCTATATTGCTCGGA
507930 TTTGGGTCTAAGTGTTAGATA-CTCGTGTTCGAATATGTATAGGACAAATGTATTTCATGAAAAC
65 TTTGGGTCTAAGTGTTAGATACCT-GTGTTCGAATATGTATAGGACAAATGTATTTCATGAAAAC
** * * *
507994 CAAAGAGTCAGAGTTATCTATGATGTTAACTATAGGGTGAGTTGTGATTACTAAGGAAAAGGAGT
129 CAAAGAGTCAGAGCAATCTATGATATTAACAATAGGGTGAGTAGTGATTACTAAGGAAAAGGAGT
508059 GAAATCC
194 GAAATCC
* * * *
508066 TTTCTAGGTGGATTGCTTGGCCTAGTTGCCATGAATCTTGTGCTTGATATCTGTATTGCTCGGAT
1 TTTCTAGGTTGATTGCTTGGCCTAGTTGCTATGAATCTAGTGCTTGATATCTATATTGCTCGGAT
* * * *
508131 TTGGGTCTAAGTTTTAGATACCTGTGTTTGAATTTGTATAGGACAAATGTATTTCATGAAAATCA
66 TTGGGTCTAAGTGTTAGATACCTGTGTTCGAATATGTATAGGACAAATGTATTTCATGAAAACCA
** * *
508196 AAGAGTCTTAGCAATCTTTGATATTAACAATAGGTTGAGTAGTGATTACTAAGGAAAAGGAGTGA
131 AAGAGTCAGAGCAATCTATGATATTAACAATAGGGTGAGTAGTGATTACTAAGGAAAAGGAGTGA
508261 AATCC
196 AATCC
* * * * *
508266 CTTCTAGGTTGATTGCTTTGCCTAGTTGCTATGAATCTAGTGCTTGATATCTATGTTGCTCAGAC
1 TTTCTAGGTTGATTGCTTGGCCTAGTTGCTATGAATCTAGTGCTTGATATCTATATTGCTCGGAT
* * * * *
508331 TTGGGTCTAAGCGTTAGATACCCGTGTTCAAATATGTTTCA-GACAAATGTATTTCATTAAAA
66 TTGGGTCTAAGTGTTAGATACCTGTGTTCGAATATGTAT-AGGACAAATGTATTTCATGAAAA
508393 ATGAAGACTC
Statistics
Matches: 286, Mismatches: 38, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
200 282 0.99
201 4 0.01
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (200 bp):
TTTCTAGGTTGATTGCTTGGCCTAGTTGCTATGAATCTAGTGCTTGATATCTATATTGCTCGGAT
TTGGGTCTAAGTGTTAGATACCTGTGTTCGAATATGTATAGGACAAATGTATTTCATGAAAACCA
AAGAGTCAGAGCAATCTATGATATTAACAATAGGGTGAGTAGTGATTACTAAGGAAAAGGAGTGA
AATCC
Found at i:514217 original size:18 final size:18
Alignment explanation
Indices: 514191--514225 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
514181 TTAAAAACTG
*
514191 ATGAGTGAATAGAATAAT
1 ATGACTGAATAGAATAAT
514209 ATGACTGAATAGAATAA
1 ATGACTGAATAGAATAA
514226 CCCAACAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.20, T:0.26
Consensus pattern (18 bp):
ATGACTGAATAGAATAAT
Found at i:516315 original size:22 final size:23
Alignment explanation
Indices: 516290--516335 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
516280 ATATAATTAT
*
516290 TAAATATTA-AATTAAAATAATA
1 TAAAAATTACAATTAAAATAATA
**
516312 TAAAAATTACTTTTAAAATAATA
1 TAAAAATTACAATTAAAATAATA
516335 T
1 T
516336 GGGTGGACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAAAATTACAATTAAAATAATA
Found at i:517655 original size:18 final size:19
Alignment explanation
Indices: 517616--517656 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
517606 ATTATTTTGA
517616 TATTATATAACTCTTGTTT
1 TATTATATAACTCTTGTTT
517635 TATTAT-TAACT-TTGTTAT
1 TATTATATAACTCTTGTT-T
517653 TATT
1 TATT
517657 TTAGACATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 10 0.48
19 6 0.29
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (19 bp):
TATTATATAACTCTTGTTT
Found at i:518932 original size:20 final size:20
Alignment explanation
Indices: 518907--518967 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
518897 TAATAAATTA
** *
518907 TTAATATAATTTTTTTTATT
1 TTAATATAATTTTTAATAAT
518927 TTAATA-AATTATTTAATAAT
1 TTAATATAATT-TTTAATAAT
*
518947 TTAATTATAATTTTAAATAAT
1 TTAA-TATAATTTTTAATAAT
518968 ATTCTTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
19 4 0.12
20 16 0.47
21 10 0.29
22 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTAATATAATTTTTAATAAT
Found at i:524209 original size:12 final size:11
Alignment explanation
Indices: 524188--524272 Score: 53
Period size: 11 Copynumber: 7.4 Consensus size: 11
524178 AAATGTCTCT
524188 AAAATAATAAC
1 AAAATAATAAC
*
524199 AAAATTAATAAT
1 AAAA-TAATAAC
* * *
524211 TATATAATATCC
1 AAAATAATA-AC
*
524223 AAACAATAACAAC
1 -AA-AATAATAAC
524236 AAAATAATAAC
1 AAAATAATAAC
* *
524247 AATATAATAGC
1 AAAATAATAAC
**
524258 AAAATTGTAAC
1 AAAATAATAAC
524269 AAAA
1 AAAA
524273 CAGCAACGAA
Statistics
Matches: 54, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
11 37 0.69
12 10 0.19
13 2 0.04
14 5 0.09
ACGTcount: A:0.64, C:0.11, G:0.02, T:0.24
Consensus pattern (11 bp):
AAAATAATAAC
Found at i:524764 original size:22 final size:22
Alignment explanation
Indices: 524704--524755 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
524694 TTATCTTTAT
524704 AATTTTTAAAGGATTAAATCAA
1 AATTTTTAAAGGATTAAATCAA
524726 AATTTTTAAAGGATTAAATCAA
1 AATTTTTAAAGGATTAAATCAA
524748 AATTTTTA
1 AATTTTTA
524756 TCATTTTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (22 bp):
AATTTTTAAAGGATTAAATCAA
Found at i:528169 original size:36 final size:36
Alignment explanation
Indices: 528129--528208 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
528119 ATACATATAA
* *
528129 ATATATATACT-TATAAAAATAAAAAT-ATGTATATGT
1 ATATATATA-TATATAAAAAGAAAAATGA-GTATACGT
* *
528165 ATATAGATATATATAAAAAGAAATATGAGTATACGT
1 ATATATATATATATAAAAAGAAAAATGAGTATACGT
528201 ATATATAT
1 ATATATAT
528209 TAAACAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.36
Consensus pattern (36 bp):
ATATATATATATATAAAAAGAAAAATGAGTATACGT
Found at i:528347 original size:3 final size:3
Alignment explanation
Indices: 528336--528385 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
528326 CAATAATACC
* * *
528336 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
528381 AAT AA
1 AAT AA
528386 ATTAAAGTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 1 0.03
3 38 0.97
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:529222 original size:9 final size:9
Alignment explanation
Indices: 529208--529235 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
529198 TGGGAGGGCA
529208 GAGCAGGTG
1 GAGCAGGTG
529217 GAGCAGGTG
1 GAGCAGGTG
529226 GAGCAGGTG
1 GAGCAGGTG
529235 G
1 G
529236 GTCTGCTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.57, T:0.11
Consensus pattern (9 bp):
GAGCAGGTG
Found at i:530003 original size:90 final size:88
Alignment explanation
Indices: 529643--530048 Score: 538
Period size: 87 Copynumber: 4.7 Consensus size: 88
529633 TGTAACCTTT
* ** * * *
529643 AACCAGCTCCAAT-GCAACCGATGGAGGCAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTTAATG
1 AACCAGCTCC-ATCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
* * ** *
529705 CAGGAAGGTAAGATCTGCT-TCTTT
64 CAGAAAGGCAAGATCTTTTGTCTTC
*
529729 AACCAGCTCCA-CTAC-A--GAGAGAGGCAAGGTTTGTGTCTTCGA-CTGCTTCGCTGTCAATGC
1 AACCAGCTCCATC-ACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGC
529789 AGAAAGGCAAGATCTTTTGTCTTC
65 AGAAAGGCAAGATCTTTTGTCTTC
*
529813 AACCAGCTCTATCACAACCGAAAGAGGCAAGG-TTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
529877 GAAAGGCAAGATCTTTTGTCTTC
66 GAAAGGCAAGATCTTTTGTCTTC
529900 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
529965 GAAGAAGGCAAGATCTTTTGTCTTC
66 G-A-AAGGCAAGATCTTTTGTCTTC
529990 AACCAGCTCCATCACAACCGAAAGAGGCAAGG-TT-TGTCTTCGA--TGCTTCG--GTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
530049 ACTCTGTCTC
Statistics
Matches: 293, Mismatches: 14, Indels: 28
0.87 0.04 0.08
Matches are distributed among these distances:
82 5 0.02
83 42 0.14
84 29 0.10
85 4 0.01
86 30 0.10
87 85 0.29
88 42 0.14
89 3 0.01
90 53 0.18
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.28
Consensus pattern (88 bp):
AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
GAAAGGCAAGATCTTTTGTCTTC
Found at i:532218 original size:8 final size:9
Alignment explanation
Indices: 532188--532216 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
532178 CTATTTTGAC
532188 TTTGATTTT
1 TTTGATTTT
532197 TTTGATTTT
1 TTTGATTTT
532206 TTTGATTTT
1 TTTGATTTT
532215 TT
1 TT
532217 GAATTCATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.79
Consensus pattern (9 bp):
TTTGATTTT
Found at i:537139 original size:36 final size:36
Alignment explanation
Indices: 537099--537178 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
537089 ATACATATAA
* *
537099 ATATATATACT-TATAAAAATAAAAAT-ATGTATATGT
1 ATATATATA-TATATAAAAAGAAAAATGA-GTATACGT
* *
537135 ATATAGATATATATAAAAAGAAATATGAGTATACGT
1 ATATATATATATATAAAAAGAAAAATGAGTATACGT
537171 ATATATAT
1 ATATATAT
537179 TAAACAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.36
Consensus pattern (36 bp):
ATATATATATATATAAAAAGAAAAATGAGTATACGT
Found at i:537251 original size:22 final size:23
Alignment explanation
Indices: 537225--537273 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
537215 TACAAGCACT
*
537225 TATA-TGATAATA-ATAAGATATA
1 TATATTGAAAATACATAAG-TATA
537247 TATATTTGAAAATACATAAGTATA
1 TATA-TTGAAAATACATAAGTATA
537271 TAT
1 TAT
537274 GAATAGAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 4 0.17
24 14 0.61
25 5 0.22
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (23 bp):
TATATTGAAAATACATAAGTATA
Found at i:537318 original size:3 final size:3
Alignment explanation
Indices: 537307--537356 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
537297 CAATAATACC
* * *
537307 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
537352 AAT AA
1 AAT AA
537357 AGTTAACAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 1 0.03
3 38 0.97
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:538203 original size:9 final size:9
Alignment explanation
Indices: 538189--538216 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
538179 GGGAGCGGCA
538189 GAGCAGGTG
1 GAGCAGGTG
538198 GAGCAGGTG
1 GAGCAGGTG
538207 GAGCAGGTG
1 GAGCAGGTG
538216 G
1 G
538217 GTCTGCTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.57, T:0.11
Consensus pattern (9 bp):
GAGCAGGTG
Found at i:538430 original size:6 final size:7
Alignment explanation
Indices: 538409--538433 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
538399 ATTTTAGAAA
538409 TTTATTT
1 TTTATTT
538416 TTTATTT
1 TTTATTT
538423 TTTATTT
1 TTTATTT
538430 TTTA
1 TTTA
538434 ATAAATTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:552244 original size:4 final size:4
Alignment explanation
Indices: 552235--552273 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
552225 GAACAAAATT
552235 TTTG TTTG TTTG TATT- TATTG TTTG TTTG TTTG TTTG TT
1 TTTG TTTG TTTG T-TTG T-TTG TTTG TTTG TTTG TTTG TT
552274 ATTCATTAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 30 0.91
5 3 0.09
ACGTcount: A:0.05, C:0.00, G:0.21, T:0.74
Consensus pattern (4 bp):
TTTG
Found at i:552258 original size:17 final size:16
Alignment explanation
Indices: 552232--552273 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
552222 TATGAACAAA
552232 ATTTTTGTTTGTTTGT
1 ATTTTTGTTTGTTTGT
552248 ATTTATTGTTTGTTTGT
1 ATTT-TTGTTTGTTTGT
552265 -TTGTTTGTT
1 ATT-TTTGTT
552274 ATTCATTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.07, C:0.00, G:0.19, T:0.74
Consensus pattern (16 bp):
ATTTTTGTTTGTTTGT
Found at i:562620 original size:31 final size:29
Alignment explanation
Indices: 562550--562621 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
562540 GGCTTAGGTT
* *
562550 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* **
562579 ACGTTTTAGTCACTTATGTTATCATGTTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
562610 ACATTTTAGTCA
1 ACATTTTAGTCA
562622 TTGAGCCGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 19 0.54
30 2 0.06
31 14 0.40
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:568059 original size:31 final size:32
Alignment explanation
Indices: 568021--568088 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 32
568011 TAACTTTTCG
*
568021 TTTAAGTACCAAATCGAACA-CTAAAATTAAA-
1 TTTAAGTACCAAATCGAACATC-AAAATCAAAC
568052 TTTAAGTACCAAATCGAACATCAAAATCAAAC
1 TTTAAGTACCAAATCGAACATCAAAATCAAAC
568084 TTTAA
1 TTTAA
568089 TATTAAATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 28 0.82
32 6 0.18
ACGTcount: A:0.50, C:0.18, G:0.06, T:0.26
Consensus pattern (32 bp):
TTTAAGTACCAAATCGAACATCAAAATCAAAC
Found at i:574650 original size:16 final size:16
Alignment explanation
Indices: 574629--574679 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 16
574619 AGACTTACCA
574629 AATATAATAAATTATT
1 AATATAATAAATTATT
574645 -A-AT-ATAAATTATT
1 AATATAATAAATTATT
* *
574658 ATTTTAATAAATTACTT
1 AATATAATAAATTA-TT
574675 AATAT
1 AATAT
574680 TTCAATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
13 10 0.37
14 2 0.07
15 2 0.07
16 8 0.30
17 5 0.19
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
AATATAATAAATTATT
Found at i:574821 original size:145 final size:147
Alignment explanation
Indices: 574628--574893 Score: 446
Period size: 145 Copynumber: 1.8 Consensus size: 147
574618 AAGACTTACC
574628 AAATATAATAAATTATTAATATAAATTATTATTTTAATAAATTACTTAATATTTCAATTTTATTT
1 AAATATAATAAATTATTAATATAAATTATTATTTTAATAAATTACTTAATATTTCAATTTTATTT
*
574693 TAATAATAAA-TTTAAAA-AAAAAATTTAAATAATCTTCTTCACATATTATTAAAAATATTCAAT
66 TAATAATAAATTTTAAAATAAAAAATTTAAATAATCTTCTTCACACATTATTAAAAATATTCAAT
574756 AATAATATTTTAATAAT
131 AATAATATTTTAATAAT
* * * *
574773 AAATATAATAAATTGTTAATATAATTTATTATTTTAATAAATTGCTTAATATTTTAATTTTATTT
1 AAATATAATAAATTATTAATATAAATTATTATTTTAATAAATTACTTAATATTTCAATTTTATTT
* * *
574838 TAATAATAAATTTTAAAATAATAATTTTAAATAATCTTCTTTACACATTATTAAAA
66 TAATAATAAATTTTAAAATAAAAAATTTAAATAATCTTCTTCACACATTATTAAAA
574894 TAAAAAATTT
Statistics
Matches: 111, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
145 71 0.64
146 7 0.06
147 33 0.30
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.47
Consensus pattern (147 bp):
AAATATAATAAATTATTAATATAAATTATTATTTTAATAAATTACTTAATATTTCAATTTTATTT
TAATAATAAATTTTAAAATAAAAAATTTAAATAATCTTCTTCACACATTATTAAAAATATTCAAT
AATAATATTTTAATAAT
Found at i:574845 original size:34 final size:29
Alignment explanation
Indices: 574776--574859 Score: 82
Period size: 34 Copynumber: 2.8 Consensus size: 29
574766 TAATAATAAA
574776 TATAATAAATTGTTAATATAATTTATTAT
1 TATAATAAATTGTTAATATAATTTATTAT
*
574805 TTTAATAAATTGCTTAATATTTTAATTTTATT-T
1 TATAATAAATTG-TTAATA---TAA-TTTATTAT
*
574838 TAATAATAAATT-TTAAAATAAT
1 T-ATAATAAATTGTTAATATAAT
574860 AATTTTAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
28 1 0.02
29 14 0.30
30 6 0.13
32 5 0.11
33 5 0.11
34 15 0.33
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (29 bp):
TATAATAAATTGTTAATATAATTTATTAT
Found at i:574863 original size:14 final size:14
Alignment explanation
Indices: 574834--574872 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
574824 TTTTAATTTT
574834 ATTTT-AATAATAA
1 ATTTTAAATAATAA
574847 ATTTTAAAATAAT-A
1 ATTTT-AAATAATAA
574861 ATTTTAAATAAT
1 ATTTTAAATAAT
574873 CTTCTTTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 6 0.25
15 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTTTAAATAATAA
Found at i:578467 original size:25 final size:25
Alignment explanation
Indices: 578376--578468 Score: 82
Period size: 25 Copynumber: 3.7 Consensus size: 25
578366 ACAGGTATAC
* * *
578376 ATATACTACATAAAAAGATACATAT
1 ATATACTATATAAAAACATGCATAT
* * *
578401 ATATATTATAAAAAAAACCATG-AGA-
1 ATATACTAT-ATAAAAA-CATGCATAT
*
578426 GTATACTATATAAAAACATGCATAT
1 ATATACTATATAAAAACATGCATAT
*
578451 ATATATTATATAAAAACA
1 ATATACTATATAAAAACA
578469 ATGCGTGTAT
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
23 4 0.08
24 8 0.15
25 30 0.58
26 8 0.15
27 2 0.04
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (25 bp):
ATATACTATATAAAAACATGCATAT
Found at i:587137 original size:31 final size:30
Alignment explanation
Indices: 587102--587173 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
587092 AATGGCTCAA
*
587102 TGACTAAAATGTTACAACA-TGAAAACGTAAG
1 TGACTAAAATGTT--AACATTGAAAACATAAG
**
587133 TGACTAAAATG-TAACATTTCAAACATAAG
1 TGACTAAAATGTTAACATTGAAAACATAAG
587162 TGACTAAAATGT
1 TGACTAAAATGT
587174 AACCTGAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 4 0.11
29 20 0.56
30 1 0.03
31 11 0.31
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.26
Consensus pattern (30 bp):
TGACTAAAATGTTAACATTGAAAACATAAG
Found at i:589034 original size:15 final size:15
Alignment explanation
Indices: 589014--589046 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
589004 CCGCTCATAG
589014 TTATAAATGACTAAC
1 TTATAAATGACTAAC
589029 TTATAAATGACTAAC
1 TTATAAATGACTAAC
589044 TTA
1 TTA
589047 AGTCTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (15 bp):
TTATAAATGACTAAC
Found at i:590039 original size:31 final size:32
Alignment explanation
Indices: 589968--590043 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
589958 ATATCAGTTT
* * * *
589968 TGATCTTAAATCAGCGAGCTGTTTAGAGGTTG
1 TGATCTTAAATCAGCGAGCTATGTAGAAGCTG
*
590000 CGATCTTAAATCAGCGAGCTATGT-GAAGCTG
1 TGATCTTAAATCAGCGAGCTATGTAGAAGCTG
590031 TGATCTTAAATCA
1 TGATCTTAAATCA
590044 ACTAACTCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
31 17 0.45
32 21 0.55
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.32
Consensus pattern (32 bp):
TGATCTTAAATCAGCGAGCTATGTAGAAGCTG
Found at i:590177 original size:69 final size:69
Alignment explanation
Indices: 590060--590264 Score: 216
Period size: 69 Copynumber: 3.0 Consensus size: 69
590050 TCAAATAACG
* * *
590060 AGCCTTAAGATTGCAGCTAGGAGCTTGAGTTCGCGCTAAC-AGTGTTGGAGGTTGCGGTGTTGAA
1 AGCC-TAAGATTACAGCTAGGAGCTTGAGCTCGCGCTAACTA-TTTTGGAGGTTGCGGTGTTGAA
590124 CCTACA
64 CCTACA
* * * * *
590130 AGCCTAAGATTACAGTTAGGAGCTTAAGCTCGCACTAACTATTTTGGAGGATGTGGTGTTGAACC
1 AGCCTAAGATTACAGCTAGGAGCTTGAGCTCGCGCTAACTATTTTGGAGGTTGCGGTGTTGAACC
*
590195 TGCA
66 TACA
* * * * * * * *
590199 AGCTTAAAATGACAGCTGGGAGCTTGAGCTCGCGCCAACTATTTCT-AAGGTTGCGGTATTTAAC
1 AGCCTAAGATTACAGCTAGGAGCTTGAGCTCGCGCTAACTATTT-TGGAGGTTGCGGTGTTGAAC
590263 CT
65 CT
590265 GTGAACCTGA
Statistics
Matches: 111, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
69 105 0.95
70 6 0.05
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (69 bp):
AGCCTAAGATTACAGCTAGGAGCTTGAGCTCGCGCTAACTATTTTGGAGGTTGCGGTGTTGAACC
TACA
Found at i:590650 original size:21 final size:20
Alignment explanation
Indices: 590609--590650 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
590599 AAGAATAACA
*
590609 AATTATGCTTGCGAAGATTG
1 AATTATGCTTGCGAAAATTG
590629 AATTAGTGCCTTGC-AAAATTG
1 AATTA-TG-CTTGCGAAAATTG
590650 A
1 A
590651 GGCAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
AATTATGCTTGCGAAAATTG
Found at i:591497 original size:4 final size:4
Alignment explanation
Indices: 591488--591574 Score: 61
Period size: 4 Copynumber: 19.8 Consensus size: 4
591478 AGGAAATGAG
591488 AAGA AAGA AAGA AAG- AA-A AAGA AAGGA GAAGA AAGA AAGAA AATGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA-GA -AAGA AAGA AAG-A AA-GA
*
591534 AATGA GAAGA AAGAA AATGA AAGTA GAAGA AAGA AAAA AAG
1 AA-GA -AAGA AAG-A AA-GA AAG-A -AAGA AAGA AAGA AAG
591575 GAGAAGAAGA
Statistics
Matches: 70, Mismatches: 2, Indels: 22
0.74 0.02 0.23
Matches are distributed among these distances:
3 4 0.06
4 34 0.49
5 23 0.33
6 9 0.13
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (4 bp):
AAGA
Found at i:591521 original size:20 final size:20
Alignment explanation
Indices: 591470--591582 Score: 101
Period size: 18 Copynumber: 5.6 Consensus size: 20
591460 GTGGAGATGA
*
591470 AAAGGAGAAGGAAATG-AGAAG
1 AAAGGAGAA-GAAA-GAAAAAG
591491 AAA-GA-AAGAAAGAAAAAG
1 AAAGGAGAAGAAAGAAAAAG
591509 AAAGGAGAAGAAAGAAAGAAAATG
1 AAAGGAGAAGAAAG--A-AAAA-G
* *
591533 AAATGAGAAGAAAGAAAATG
1 AAAGGAGAAGAAAGAAAAAG
*
591553 AAAGTAGAAGAAAG-AAAA-
1 AAAGGAGAAGAAAGAAAAAG
591571 AAAGGAGAAGAA
1 AAAGGAGAAGAA
591583 GAAGAGGGAA
Statistics
Matches: 78, Mismatches: 7, Indels: 17
0.76 0.07 0.17
Matches are distributed among these distances:
17 1 0.01
18 22 0.28
19 7 0.09
20 22 0.28
21 6 0.08
22 2 0.03
23 4 0.05
24 14 0.18
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.04
Consensus pattern (20 bp):
AAAGGAGAAGAAAGAAAAAG
Found at i:591547 original size:28 final size:28
Alignment explanation
Indices: 591480--591549 Score: 103
Period size: 24 Copynumber: 2.6 Consensus size: 28
591470 AAAGGAGAAG
591480 GAAATGAGAAGAAAGAAAGAAAGAAAAA
1 GAAATGAGAAGAAAGAAAGAAAGAAAAA
*
591508 GAAA-G-G-AG-AAGAAAGAAAGAAAAT
1 GAAATGAGAAGAAAGAAAGAAAGAAAAA
591532 GAAATGAGAAGAAAGAAA
1 GAAATGAGAAGAAAGAAA
591550 ATGAAAGTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
24 19 0.51
25 3 0.08
26 2 0.05
27 3 0.08
28 10 0.27
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (28 bp):
GAAATGAGAAGAAAGAAAGAAAGAAAAA
Found at i:591567 original size:24 final size:24
Alignment explanation
Indices: 591492--591587 Score: 112
Period size: 24 Copynumber: 4.2 Consensus size: 24
591482 AATGAGAAGA
* *
591492 AAGAAAGAAAGAAAAAGAAAGGAG
1 AAGAAAGAAAGAAAATGAAAGTAG
591516 AAGAAAGAAAGAAAATGAAA-T-G
1 AAGAAAGAAAGAAAATGAAAGTAG
591538 -AG-AAGAAAGAAAATGAAAGTAG
1 AAGAAAGAAAGAAAATGAAAGTAG
* *
591560 AAGAAAGAAA-AAAAGGAGAAGAAG
1 AAGAAAGAAAGAAAATGA-AAGTAG
591584 AAGA
1 AAGA
591588 GGGAATGAAG
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
20 16 0.25
21 3 0.05
22 2 0.03
23 8 0.13
24 34 0.54
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (24 bp):
AAGAAAGAAAGAAAATGAAAGTAG
Found at i:591586 original size:44 final size:45
Alignment explanation
Indices: 591485--591587 Score: 131
Period size: 44 Copynumber: 2.3 Consensus size: 45
591475 AGAAGGAAAT
*
591485 GAGAAGAAAGAAAGAAAGAAAAAGAAAGGAGAAGAAAGAAAGAAAAT
1 GAGAAG-AAG-AAGAAAGAAAAAGAAAGGAGAAGAAAGAAAGAAAAG
* *
591532 GA-AATG-AGAAGAAAGAAAATGAAAGTAGAAGAAAGAAA-AAAAG
1 GAGAA-GAAGAAGAAAGAAAAAGAAAGGAGAAGAAAGAAAGAAAAG
591575 GAGAAGAAGAAGA
1 GAGAAGAAGAAGA
591588 GGGAATGAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
43 7 0.14
44 36 0.72
45 2 0.04
46 2 0.04
47 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.04
Consensus pattern (45 bp):
GAGAAGAAGAAGAAAGAAAAAGAAAGGAGAAGAAAGAAAGAAAAG
Found at i:591587 original size:20 final size:21
Alignment explanation
Indices: 591504--591587 Score: 79
Period size: 20 Copynumber: 4.0 Consensus size: 21
591494 GAAAGAAAGA
591504 AAAAGAAAGGAGAAGAAAGAAAG
1 AAAAGAAAGGAGAAG-AAG-AAG
*
591527 AAAATGAAATGAGAAG-A-AAG
1 AAAA-GAAAGGAGAAGAAGAAG
*
591547 AAAATGAAAGTAGAAG-A-AAG
1 AAAA-GAAAGGAGAAGAAGAAG
591567 AAAA-AAAGGAGAAGAAGAAG
1 AAAAGAAAGGAGAAGAAGAAG
591587 A
1 A
591588 GGGAATGAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
18 9 0.17
19 1 0.02
20 29 0.54
22 1 0.02
23 4 0.07
24 10 0.19
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (21 bp):
AAAAGAAAGGAGAAGAAGAAG
Found at i:599030 original size:12 final size:12
Alignment explanation
Indices: 598999--599051 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
598989 TTGTTCTGGA
* *
598999 TCTGGCTAGGAC
1 TCTGGCTGGGGC
599011 TCTGGCTGGGGC
1 TCTGGCTGGGGC
599023 TCTGGCTGGGGC
1 TCTGGCTGGGGC
*
599035 TCCT-GCTCGGGC
1 T-CTGGCTGGGGC
599047 TCTGG
1 TCTGG
599052 TTTTGGATCA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 2 0.06
12 32 0.89
13 2 0.06
ACGTcount: A:0.04, C:0.28, G:0.42, T:0.26
Consensus pattern (12 bp):
TCTGGCTGGGGC
Found at i:605923 original size:12 final size:12
Alignment explanation
Indices: 605906--605958 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
605896 TTGCTCCGAA
605906 TCTGGCTGGGGC
1 TCTGGCTGGGGC
*
605918 TCTGGCTGTGGC
1 TCTGGCTGGGGC
*
605930 TCTGGCTGAGGC
1 TCTGGCTGGGGC
*
605942 TCCT-GCTCGGGC
1 T-CTGGCTGGGGC
605954 TCTGG
1 TCTGG
605959 TTTCGAATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
11 2 0.06
12 31 0.89
13 2 0.06
ACGTcount: A:0.02, C:0.28, G:0.42, T:0.28
Consensus pattern (12 bp):
TCTGGCTGGGGC
Found at i:610035 original size:153 final size:149
Alignment explanation
Indices: 609638--610272 Score: 859
Period size: 148 Copynumber: 4.2 Consensus size: 149
609628 TTTTTTATTG
* * *
609638 AAAA-TAATAAAATTCAGAAAAAAATACGAACAAAAGGCCGAAATAA-GAGTTTTTTTAA-TTAT
1 AAAAGTAATAAAATCCGGAAAAAAATACGAACAAAGGGCCGAAATAAGGA-TTTTTTTAATTTAT
*
609700 TTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
65 TTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAA-AAAA
609765 TTAAAAAATAATATATTTTTT
129 TTAAAAAATAATATATTTTTT
* * ** * *
609786 -AAAGTAATAAACTCTGGGGGGAAAAATAAGAACAAAGGGCCGAAATAAAGATTTTTTTAAATTT
1 AAAAGTAATAAAATC--CGGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTTT-AATTT
* * * * *
609850 ATTTAAAAAACACAGTAAATTAATATATTTCAAACATGATGTATTAAAATAATGTAAACTAATAA
63 ATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAA-AA
609915 AATTAAAAAATAATATATTTTTATT
127 AATTAAAAAATAATATA-TTTT-TT
*
609940 AAAAGTAATAAAATCCGGGAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTTTAAATTTAT
1 AAAAGTAATAAAATCCGGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTTT-AATTTAT
* * * *
610005 TTAAAAAACACACTAAATTAATACATTTCAAATATAACGTACTGAAATAATGTAAAATAAAAAAA
65 TTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAAAAAT
*
610070 TAAAAAATAGTATATTTTTT
130 TAAAAAATAATATATTTTTT
* * * *
610090 AAAAGTAAAAAAATCC-TAAAAAAATACGAATAAAGGGCCGAAATAATGG-TTTTTTTGATTTAT
1 AAAAGTAATAAAATCCGGAAAAAAATACGAACAAAGGGCCGAAATAA-GGATTTTTTTAATTTAT
* *
610153 TTAAAAAACACAGTAAATTAATATATTTCAAACATAATGTACTAAAATAATGTAAAATAAAAAAT
65 TTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAAAAAT
*
610218 TAAAAAATAGTATATTTTTT
130 TAAAAAATAATATATTTTTT
* * *
610238 AAAAGTAATTAATTCCGAAAAAAAATACGAACAAA
1 AAAAGTAATAAAATCCGGAAAAAAATACGAACAAA
610273 TGACTAAAAT
Statistics
Matches: 431, Mismatches: 45, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
147 3 0.01
148 106 0.25
149 50 0.12
150 52 0.12
151 8 0.02
152 95 0.22
153 102 0.24
154 2 0.00
155 13 0.03
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.30
Consensus pattern (149 bp):
AAAAGTAATAAAATCCGGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTTTAATTTATT
TAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAAAAATT
AAAAAATAATATATTTTTT
Found at i:612927 original size:8 final size:8
Alignment explanation
Indices: 612916--612957 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
612906 GGAAAGAGAG
612916 AAAGGACA
1 AAAGGACA
612924 AAAGGACA
1 AAAGGACA
612932 AAAGGGACA
1 AAA-GGACA
*
612941 AAA-GA-G
1 AAAGGACA
612947 AAAGGACA
1 AAAGGACA
612955 AAA
1 AAA
612958 CTGACCCGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 3 0.10
7 4 0.14
8 14 0.48
9 8 0.28
ACGTcount: A:0.64, C:0.10, G:0.26, T:0.00
Consensus pattern (8 bp):
AAAGGACA
Found at i:619678 original size:24 final size:25
Alignment explanation
Indices: 619646--619694 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
619636 AAATTCCATG
*
619646 ATAATTTTATT-T-TTTAATATTTTT
1 ATAAATTTATTGTATTTAA-ATTTTT
619670 ATAAATTTATTGTATTTAAATTTTT
1 ATAAATTTATTGTATTTAAATTTTT
619695 TGTTAACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 7 0.32
26 5 0.23
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
ATAAATTTATTGTATTTAAATTTTT
Found at i:620287 original size:52 final size:52
Alignment explanation
Indices: 620225--620327 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
620215 TTAATCAAAA
*
620225 ATTATATTAATCATTACTAGCTTAATAATTGAAATTTCTTTCCAAAATTTGG
1 ATTATATTAATCATTACTAGCTTAATAATTAAAATTTCTTTCCAAAATTTGG
*
620277 ATTATATTAATCATTACTAGCTTAATAATTAAAATTTCTTTCTAAAATTTG
1 ATTATATTAATCATTACTAGCTTAATAATTAAAATTTCTTTCCAAAATTTG
620328 TTCACTTGTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.46
Consensus pattern (52 bp):
ATTATATTAATCATTACTAGCTTAATAATTAAAATTTCTTTCCAAAATTTGG
Found at i:620546 original size:174 final size:173
Alignment explanation
Indices: 620294--620672 Score: 523
Period size: 174 Copynumber: 2.2 Consensus size: 173
620284 TAATCATTAC
* * * *
620294 TAGCTTAATAATTAAAATTTCTTTCTAAAATTTGTTCACTTGTGAACTAACTCAAATTCATAATA
1 TAGCTTAATAATTAAAATTTCTTTCTAAAATCTATTCACTTGTGAACAAACTCAAATTCATAACA
* * *
620359 AGGTCATTAAGCATTAATTCCATCACTCAATCAAAAACTTTTTACAGCTAAATAATACAT-CGCA
66 AGCTCATTAAGCATTAATTCCATCACCCAATCAAAAACTTTTTACAGCTAAACAATACATCCGCA
*
620423 AATTAAATTTCAGAGGATTAATCAAGATTTATACTAATCA-AA
131 AATTAAATTTCAGAGGATTAATCAAGAATTATACTAATCACAA
*
620465 TAGCTTAA-AATTAAACTTTCTTTCTAAAATCTATTCACCGTTTTGTGAACAAA-TCCAAATTCA
1 TAGCTTAATAATTAAAATTTCTTTCTAAAATCTATTCA-C---TTGTGAACAAACT-CAAATTCA
* * * *
620528 TAACAAGCTCATTAAGCATTACTTCCATTACCCGATCAAAAACTTTTTACAGCTAAACAATACTT
61 TAACAAGCTCATTAAGCATTAATTCCATCACCCAATCAAAAACTTTTTACAGCTAAACAATACAT
* * *
620593 CCGCAAATTACATTTCAGAGGATTAATCAAGAATTATACTAATTAGCAT
126 CCGCAAATTAAATTTCAGAGGATTAATCAAGAATTATACTAATCA-CAA
*
620642 TAGCTTAATAATTAAAATTTATTTCTAAAAT
1 TAGCTTAATAATTAAAATTTCTTTCTAAAAT
620673 AAAAAAACCT
Statistics
Matches: 181, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
170 26 0.14
171 9 0.05
173 1 0.01
174 75 0.41
175 41 0.23
177 9 0.05
178 20 0.11
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.35
Consensus pattern (173 bp):
TAGCTTAATAATTAAAATTTCTTTCTAAAATCTATTCACTTGTGAACAAACTCAAATTCATAACA
AGCTCATTAAGCATTAATTCCATCACCCAATCAAAAACTTTTTACAGCTAAACAATACATCCGCA
AATTAAATTTCAGAGGATTAATCAAGAATTATACTAATCACAA
Found at i:629659 original size:2 final size:2
Alignment explanation
Indices: 629652--629686 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
629642 CAAATTTCTA
* *
629652 AT AT AT AT AT AT AA AT AT AT AT AC AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
629687 ACTTATTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:631977 original size:26 final size:28
Alignment explanation
Indices: 631948--632006 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
631938 AAATTAAGTA
*
631948 TTAATATATT-ATTTAAC-AGTTTAAT-T
1 TTAATAT-TTAATTTAACAAATTTAATGT
631974 TTAATATTTAATTTAACAAATTTAATGT
1 TTAATATTTAATTTAACAAATTTAATGT
632002 TTAAT
1 TTAAT
632007 CTAATATCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 2 0.07
26 14 0.48
27 7 0.24
28 6 0.21
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (28 bp):
TTAATATTTAATTTAACAAATTTAATGT
Found at i:632607 original size:29 final size:27
Alignment explanation
Indices: 632554--632618 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 27
632544 GAATTTTACA
**
632554 TATTCAAAATTTAAAATTTTTTTAATAT
1 TATTCAAAATTTAAAATTTAATTAA-AT
632582 CTATTCAAAATTTAAAATTTAATTAAAT
1 -TATTCAAAATTTAAAATTTAATTAAAT
632610 TATT-AAAAT
1 TATTCAAAAT
632619 ATTAGTATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.15
27 4 0.12
28 2 0.06
29 23 0.68
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (27 bp):
TATTCAAAATTTAAAATTTAATTAAAT
Found at i:633597 original size:15 final size:16
Alignment explanation
Indices: 633571--633600 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
633561 TGTTTTTCAT
633571 CCTTCAAGTTTTCCAC
1 CCTTCAAGTTTTCCAC
633587 CCTTCAA-TTTTCCA
1 CCTTCAAGTTTTCCA
633601 TCATCCTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.20, C:0.37, G:0.03, T:0.40
Consensus pattern (16 bp):
CCTTCAAGTTTTCCAC
Found at i:634196 original size:104 final size:103
Alignment explanation
Indices: 633984--634195 Score: 293
Period size: 104 Copynumber: 2.1 Consensus size: 103
633974 TCGCTTCCAA
633984 ATTTTTATTATTTTTCTTGAATTTGTTTCGAGTTTTACGTTGTTTATCGATGCCTTTGTCGCTGA
1 ATTTTTATTATTTTTCTTGAATTTGTTTCGAGTTTTACGTTGTTTATCGATGCCTTTGTCGCTGA
* *
634049 TCTAAGCTCCCTCGATTACTTTTTCGCTAATCAATTCC
66 TCTAAGCTCCATCGATCACTTTTTCGCTAATCAATTCC
* * *
634087 ATTTTTAATTTTTTTTCTTGTATTTGTTTTTGAG-TTTACGTTGTTTATCGATGCCTTTGTCGCT
1 ATTTTT-ATTATTTTTCTTGAATTTG-TTTCGAGTTTTACGTTGTTTATCGATGCCTTTGTCGCT
* * * * * *
634151 GCTCTAAGGTCCATTGATCGCTTTTT-GCTCATCGATTCC
64 GATCTAAGCTCCATCGATCACTTTTTCGCTAATCAATTCC
634190 ATTTTT
1 ATTTTT
634196 TTTTAATTTG
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
103 23 0.24
104 67 0.70
105 6 0.06
ACGTcount: A:0.16, C:0.18, G:0.15, T:0.52
Consensus pattern (103 bp):
ATTTTTATTATTTTTCTTGAATTTGTTTCGAGTTTTACGTTGTTTATCGATGCCTTTGTCGCTGA
TCTAAGCTCCATCGATCACTTTTTCGCTAATCAATTCC
Found at i:638151 original size:16 final size:16
Alignment explanation
Indices: 638127--638157 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
638117 TTATCATTTC
*
638127 ATATTAATTAATTAAT
1 ATATAAATTAATTAAT
638143 ATATAAATTAATTAA
1 ATATAAATTAATTAA
638158 ATTGAGATGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATAAATTAATTAAT
Found at i:640027 original size:21 final size:22
Alignment explanation
Indices: 639987--640027 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
639977 TCAGAGAAAC
* *
639987 GAGATAAAGATTATAAAATTGA
1 GAGATAAAGACTAAAAAATTGA
640009 GAGATAAAG-CTAAAAAATT
1 GAGATAAAGACTAAAAAATT
640028 TTGTGTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.56, C:0.02, G:0.17, T:0.24
Consensus pattern (22 bp):
GAGATAAAGACTAAAAAATTGA
Found at i:640726 original size:13 final size:13
Alignment explanation
Indices: 640708--640762 Score: 58
Period size: 13 Copynumber: 4.0 Consensus size: 13
640698 GTATTTAAAA
640708 ATATAAAAATATT
1 ATATAAAAATATT
640721 ATATAAAAATATT
1 ATATAAAAATATT
*
640734 -TTTCGAAAAAATATT
1 ATAT---AAAAATATT
640749 ATATAAAAAGTATT
1 ATATAAAAA-TATT
640763 GATTATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
12 2 0.06
13 18 0.51
14 4 0.11
15 9 0.26
16 2 0.06
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (13 bp):
ATATAAAAATATT
Found at i:644101 original size:12 final size:11
Alignment explanation
Indices: 644067--644127 Score: 52
Period size: 12 Copynumber: 5.4 Consensus size: 11
644057 TGGTATTTAA
*
644067 TTTTTATTTAAT
1 TTTTTAATT-AT
*
644079 TTTTTTA-TAT
1 TTTTTAATTAT
644089 TTTTTAACTTAT
1 TTTTTAA-TTAT
644101 TTTTTAATTTAT
1 TTTTTAA-TTAT
* *
644113 ATTATAATTAT
1 TTTTTAATTAT
644124 TTTT
1 TTTT
644128 GTCGAGGGAG
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
10 8 0.21
11 7 0.18
12 24 0.62
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTTAATTAT
Found at i:644126 original size:22 final size:21
Alignment explanation
Indices: 644062--644127 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 21
644052 TTTGTTGGTA
644062 TTTAATTTTTATT-TAATT-TT
1 TTTAA-TTTTATTATAATTATT
*
644082 TTTATATTTT-TTA-ACTTATTT
1 TTTA-ATTTTATTATAATTA-TT
644103 TTTAATTTATATTATAATTATT
1 TTTAATTT-TATTATAATTATT
644125 TTT
1 TTT
644128 GTCGAGGGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
19 5 0.14
20 12 0.32
21 8 0.22
22 8 0.22
23 4 0.11
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTAATTTTATTATAATTATT
Found at i:644253 original size:13 final size:13
Alignment explanation
Indices: 644235--644263 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
644225 TTTATACTCG
644235 ATTTTATTTTTTA
1 ATTTTATTTTTTA
644248 ATTTTATTTTTTA
1 ATTTTATTTTTTA
644261 ATT
1 ATT
644264 CTACGAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTTATTTTTTA
Found at i:645128 original size:90 final size:90
Alignment explanation
Indices: 645034--645199 Score: 314
Period size: 90 Copynumber: 1.8 Consensus size: 90
645024 TATAGGATTT
*
645034 AAAAAATTATATTATATAACTATTTCTTTGTATTTTTTAAATTAATAATATAATTTTATTTGTCG
1 AAAAAATTATATTATATAAATATTTCTTTGTATTTTTTAAATTAATAATATAATTTTATTTGTCG
645099 CGATTACAAAATTATATAAATAATA
66 CGATTACAAAATTATATAAATAATA
645124 AAAAAATTATATTATATAAATATTTCTTTGTATTTTTTAAATTAATAATATAATTTTATTTGTCG
1 AAAAAATTATATTATATAAATATTTCTTTGTATTTTTTAAATTAATAATATAATTTTATTTGTCG
*
645189 TGATTACAAAA
66 CGATTACAAAA
645200 AAATAAAGTG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 74 1.00
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (90 bp):
AAAAAATTATATTATATAAATATTTCTTTGTATTTTTTAAATTAATAATATAATTTTATTTGTCG
CGATTACAAAATTATATAAATAATA
Found at i:648558 original size:25 final size:26
Alignment explanation
Indices: 648530--648579 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
648520 TCTAAAAAAT
648530 AAATAA-ACTAAATTTCTAAA-TATAA
1 AAATAAGACTAAATTTC-AAACTATAA
648555 AAATAAGACTAAATTTCAAACTATA
1 AAATAAGACTAAATTTCAAACTATA
648580 CCAAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (26 bp):
AAATAAGACTAAATTTCAAACTATAA
Found at i:657586 original size:35 final size:35
Alignment explanation
Indices: 657547--657617 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
657537 ATTTTTTATC
657547 AATTTGAACCTCATTCTATTTTTAAGCTAAACTTG
1 AATTTGAACCTCATTCTATTTTTAAGCTAAACTTG
*
657582 AATTTGAACCTCATTCTATTTTTAAGCTAAATTTG
1 AATTTGAACCTCATTCTATTTTTAAGCTAAACTTG
657617 A
1 A
657618 CCACGGCCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.44
Consensus pattern (35 bp):
AATTTGAACCTCATTCTATTTTTAAGCTAAACTTG
Found at i:660019 original size:50 final size:50
Alignment explanation
Indices: 659895--660139 Score: 348
Period size: 50 Copynumber: 4.8 Consensus size: 50
659885 GATAATAACA
* ** * * *
659895 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
659946 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
659996 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGGCCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
660046 TGCC-ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA---CCTCTCATCTCGG
660098 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
660140 TTACCCAAAT
Statistics
Matches: 174, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
49 30 0.17
50 62 0.36
51 33 0.19
52 17 0.10
53 32 0.18
ACGTcount: A:0.19, C:0.31, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:660120 original size:102 final size:100
Alignment explanation
Indices: 659895--660139 Score: 350
Period size: 102 Copynumber: 2.4 Consensus size: 100
659885 GATAATAACA
* * * *
659895 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATG-TTCTCGTGTTGGTGCCCATGCCATG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGG--GCCTCTCATCTCGGTGCCCATGCCATG
*
659959 TCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
64 TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
*
659996 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGGCCTCTCATCTCGGTG-CCATGCCATGTC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGGCCTCTCATCTCGGTGCCCATGCCATGTC
*
660060 CCAGACATGGTCTTACATGGGACCTCCTCTCATCTCGG
66 CCAGACATGGTCTTACAGGGGA---CCTCTCATCTCGG
* *
660098 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGGCCTCT
660140 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
99 33 0.25
100 10 0.08
101 35 0.27
102 53 0.40
ACGTcount: A:0.19, C:0.31, G:0.24, T:0.27
Consensus pattern (100 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGGCCTCTCATCTCGGTGCCCATGCCATGTC
CCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:660255 original size:13 final size:13
Alignment explanation
Indices: 660234--660265 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
660224 GCTTAGATCA
*
660234 TCATCAAATAAAT
1 TCATAAAATAAAT
660247 TCATAAAATAAAT
1 TCATAAAATAAAT
660260 TCATAA
1 TCATAA
660266 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:660512 original size:30 final size:30
Alignment explanation
Indices: 660477--660534 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
660467 CCTCGACTCT
*
660477 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
660507 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
660535 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:664805 original size:24 final size:25
Alignment explanation
Indices: 664754--664810 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
664744 CATTTAAAAG
*
664754 AAATTTGTCAAAAATCAAAAGCTAA
1 AAATTTTTCAAAAATCAAAAGCTAA
664779 AAATTTTTCAAAAATCAAAAGCTAA
1 AAATTTTTCAAAAATCAAAAGCTAA
664804 AAATTTT
1 AAATTTT
664811 CACTTTGTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (25 bp):
AAATTTTTCAAAAATCAAAAGCTAA
Found at i:672186 original size:187 final size:188
Alignment explanation
Indices: 671810--672188 Score: 602
Period size: 187 Copynumber: 2.0 Consensus size: 188
671800 AAATTTAAAT
* * * *
671810 AGTTGGGTGATTATTTTCTAATTTTTTATAGTTATGTGACCAAAATTAAATTTATTAATAGTTGA
1 AGTTAGGTGATTATTTTCTAATTTTTCATAGTTATATGACCAAAATTAAATTTATTAATAGTTAA
*
671875 GTGACATTAATGTAATTTACCCTTACTGTTTTTTGTTTCTAGTCCCGCCTCAATTTGCAATCTAA
66 GTGACATTAATGTAATTTACCCTTACTGTTTTATGTTTCTAGTCCCGCCTCAATTTGCAATCTAA
* * *
671940 TTTATTGTATTATTCTGTTTCCGGTATCCTCTCTTCAAAATGGAATCTTATGGCTGCA
131 TTTATCGTATTATTATCTTTCCGGTATCCTCTCTTCAAAATGGAATCTTATGGCTGCA
* * *
671998 AGTTAGGTGATTATTTTGTAATTTTTCGTAGTTATATGACTAAAATTAAATTTATTAATAGTTAA
1 AGTTAGGTGATTATTTTCTAATTTTTCATAGTTATATGACCAAAATTAAATTTATTAATAGTTAA
*
672063 GTGACATTAAT-TGAATTTACCCTTACT-TTTTATGTTTCTAGTCCCGCCTCTATTTGCAATCTA
66 GTGACATTAATGT-AATTTACCCTTACTGTTTTATGTTTCTAGTCCCGCCTCAATTTGCAATCTA
*
672126 ATTTATCGTATTATTATCTTTCCTGTATCCTCTCTTCAAAATGGAATCTTA-GGACTGCA
130 ATTTATCGTATTATTATCTTTCCGGTATCCTCTCTTCAAAATGGAATCTTATGG-CTGCA
672185 AGTT
1 AGTT
672189 TGCATCCCGA
Statistics
Matches: 176, Mismatches: 13, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
186 2 0.01
187 91 0.52
188 83 0.47
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (188 bp):
AGTTAGGTGATTATTTTCTAATTTTTCATAGTTATATGACCAAAATTAAATTTATTAATAGTTAA
GTGACATTAATGTAATTTACCCTTACTGTTTTATGTTTCTAGTCCCGCCTCAATTTGCAATCTAA
TTTATCGTATTATTATCTTTCCGGTATCCTCTCTTCAAAATGGAATCTTATGGCTGCA
Found at i:677169 original size:15 final size:15
Alignment explanation
Indices: 677135--677184 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
677125 CGATAAATTT
* *
677135 AAAAATTAAGTATTAA
1 AAAAAATAAGTATT-G
*
677151 AAAAAATAAGTGTTG
1 AAAAAATAAGTATTG
*
677166 AAAAAATAGGTATTG
1 AAAAAATAAGTATTG
677181 AAAA
1 AAAA
677185 TTTAAGTTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (15 bp):
AAAAAATAAGTATTG
Found at i:681756 original size:167 final size:170
Alignment explanation
Indices: 681478--681813 Score: 597
Period size: 167 Copynumber: 2.0 Consensus size: 170
681468 ACATAAAAAT
681478 GCAAAATACAATACAAACACACGATTTCATACCAAAAAACCATTGTCTTAGAGAAAAGGAAACAT
1 GCAAAATACAATACAAACACACGATTTCATACCAAAAAACCA-TGTCTTAGAGAAAAGGAAACAT
681543 AAAACGCTCAAATGCAAGAAAGCTCAACTCTAATAGTGACTTACCAAAGATTT-TG-CGGCAACT
65 AAAACGCTCAAATGCAAGAAAGCTCAACTCTAATAGTGACTTACCAAAGATTTCTGACGGCAACT
681606 GCAACTGCAAAACATGAGAGCTCAGCAGCCACCTTTGGAAA
130 GCAACTGCAAAACATGAGAGCTCAGCAGCCACCTTTGGAAA
*
681647 GCAAAATACAATACAAACACACGATTTCATACCAAAAAACCA-GTCTTAGAGAAAAGTAAACATA
1 GCAAAATACAATACAAACACACGATTTCATACCAAAAAACCATGTCTTAGAGAAAAGGAAACATA
* *
681711 AAACGCTCAAATGCAAGAAAGCTCAACTCTAATGGTGACTTACCAAAGATTTCTGCAACTGCAAC
66 AAACGCTCAAATGCAAGAAAGCTCAACTCTAATAGTGACTTACCAAAGATTTCTG--ACGGCAAC
681776 TGCAACTGCAAAACATGAGAGCTCAGCAGCCACCTTTG
129 TGCAACTGCAAAACATGAGAGCTCAGCAGCCACCTTTG
681814 ATTTCCAAAA
Statistics
Matches: 160, Mismatches: 3, Indels: 6
0.95 0.02 0.04
Matches are distributed among these distances:
167 72 0.45
168 2 0.01
169 42 0.26
171 44 0.28
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (170 bp):
GCAAAATACAATACAAACACACGATTTCATACCAAAAAACCATGTCTTAGAGAAAAGGAAACATA
AAACGCTCAAATGCAAGAAAGCTCAACTCTAATAGTGACTTACCAAAGATTTCTGACGGCAACTG
CAACTGCAAAACATGAGAGCTCAGCAGCCACCTTTGGAAA
Found at i:688070 original size:188 final size:188
Alignment explanation
Indices: 687748--688127 Score: 604
Period size: 188 Copynumber: 2.0 Consensus size: 188
687738 AAATTTAAAT
* * * *
687748 AGTTGGGTGATTATTTTCTAATTTTTTATAGTTATGTGACCAAAATTAAATTTATTAATAGTTGA
1 AGTTAGGTGATTATTTTCTAATTTTTCATAGTTATATGACCAAAATTAAATTTATTAATAGTTAA
687813 GTGACATTAATGTAATTTACCCTTACTGTTTTTTGTTTCTAGTCCCGCCTCAATTTGCAATCTAA
66 GTGACATTAATGTAATTTACCCTTACTGTTTTTTGTTTCTAGTCCCGCCTCAATTTGCAATCTAA
* * *
687878 TTTATTGTATTATTCTGTTTCCGGTATCCTCTCTTCAAAATGGAATCTTATGG-CTGCA
131 TTTATCGTATTATTATCTTTCCGGTATCCTCTCTTCAAAATGGAATCTTA-GGACTGCA
* * *
687936 AGTTAGGTGATTATTTTGTAATTTTTCGTAGTTATATGACTAAAATTAAATTTATTAATAGTTAA
1 AGTTAGGTGATTATTTTCTAATTTTTCATAGTTATATGACCAAAATTAAATTTATTAATAGTTAA
*
688001 GTGACATTAAT-TGAATTTACCCTTACT-TTTTTATGTTTCTAGTCCCGCCTCTATTTGCAATCT
66 GTGACATTAATGT-AATTTACCCTTACTGTTTTT-TGTTTCTAGTCCCGCCTCAATTTGCAATCT
*
688064 AATTTATCGTATTATTATCTTTCCTGTATCCTCTCTTCAAAATGGAATCTTAGGACTGCA
129 AATTTATCGTATTATTATCTTTCCGGTATCCTCTCTTCAAAATGGAATCTTAGGACTGCA
688124 AGTT
1 AGTT
688128 TGCATCCCGA
Statistics
Matches: 177, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
187 8 0.05
188 169 0.95
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (188 bp):
AGTTAGGTGATTATTTTCTAATTTTTCATAGTTATATGACCAAAATTAAATTTATTAATAGTTAA
GTGACATTAATGTAATTTACCCTTACTGTTTTTTGTTTCTAGTCCCGCCTCAATTTGCAATCTAA
TTTATCGTATTATTATCTTTCCGGTATCCTCTCTTCAAAATGGAATCTTAGGACTGCA
Found at i:692969 original size:14 final size:15
Alignment explanation
Indices: 692952--693000 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
692942 CGATAAATTT
* *
692952 AAAAATTAAGTATTA
1 AAAAAATAAGTATTG
*
692967 AAAAAATAAGTGTTG
1 AAAAAATAAGTATTG
*
692982 AAAAAATAGGTATTG
1 AAAAAATAAGTATTG
692997 AAAA
1 AAAA
693001 TTTAAGTTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.27
Consensus pattern (15 bp):
AAAAAATAAGTATTG
Found at i:694413 original size:19 final size:19
Alignment explanation
Indices: 694389--694426 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
694379 TTTCCTATTC
694389 CTGCTTGTGTGTGTGGATT
1 CTGCTTGTGTGTGTGGATT
694408 CTGCTTGTGTGTGTGGATT
1 CTGCTTGTGTGTGTGGATT
694427 GATAGCCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.05, C:0.11, G:0.37, T:0.47
Consensus pattern (19 bp):
CTGCTTGTGTGTGTGGATT
Found at i:700779 original size:637 final size:636
Alignment explanation
Indices: 699558--700808 Score: 2164
Period size: 637 Copynumber: 2.0 Consensus size: 636
699548 ATATCGGCTC
*
699558 AAGTAAAGAAATTATGCAAAATCAAAGCAAGATATGATATTGAATTAGTAAAGTCAACTGTACAT
1 AAGTAAAGAAATTATGCAAAATCAAAGCAAGATATGATATTAAATTAGTAAAGTCAACTGTACAT
* * * *
699623 TCTTCCATTGCAGTGAAGAAAAGAGAGAGCGTGTAATGCAATGTATTAAGCAAGATATAATATTG
66 TCTTCCACTACAGTGAAGAAAAGAGAGAGCATGTAATGCAATGTATTAAACAAGATATAATATTG
* *
699688 AATTAGTAAATTCAAGATTTTGATCAACAATATTAAGGCCCGGATATGCCGAAGAAAAACCATAA
131 AATTAGTAAATTCAAGATTTTGATCAACAATATGAAGCCCCGGATATGCCGAAGAAAAACCATAA
** * *
699753 ATTATGAGAATATTATTTATATATCTGATTACCATAAGCATCAGTAAATAATAATATGACACATC
196 ATTATGAGAATAGCATTTATATATATGATTACCATAAGCATCAGTAAATAATAACATGACACATC
699818 ATCATTAAATTAAACAAAAAATAATGCATACCAAAGTATCATGGTTCCCAGCTCTTGTTAAGGTC
261 ATCATTAAATTAAACAAAAAATAATGCATACCAAAGTATCATGGTTCCCAGCTCTTGTTAAGGTC
699883 TGAAAATCCAAATTAAAAAGTTAAAGTTAGATTGGAGACTTAAATTGAGTAATTAAATTTGTAAA
326 TGAAAATCCAAATTAAAAAGTTAAAGTTAGATTGGAGACTTAAATTGAGTAATTAAATTTGTAAA
*
699948 AATTTAACCTCTACCTCTTGAAAGTTCGTGTCTCCACTATAAGTGAATCCCCCATGTTGTCTCAA
391 AAATTAACCTCTACCTCTTGAAAGTTCGTGTCTCCACTATAAGTGAATCCCCCATGTTGTCTCAA
* *
700013 GTCTCCAAGCTCTTCATTGAAATCTTTAAGGACTGACCTGTTAGCGATGCTCTTCTTGGCACGGA
456 GTCTCCAAGCTCTTCATTGAAATCTTTAAGGACTGACCTGTTAACGATGCTCTTCTTGGCACGAA
* * * *
700078 TATGTGAAATTTAGATTAAATCAAATCATTGAAATGAAAAGAACAGAAAAACATAATGGCATCAA
521 TATGTAAAATTTAGATCAAATCAAATCATTGAAACGAAAAGAACAGAAAAACACAATGGCATCAA
*
700143 AATCTTC-TTTCAAATCAGCAAAACAAAAACATATGAAACGATAATGACTTA
586 AATCTTCTTTTC-AATCAACAAAACAAAAACATATGAAACGATAATGACTTA
* *
700194 AAGTAAAGAAATTATGCAAAATCAAAGCAAGATATGATATTAAATTAGTAACGTCAACTGTACGT
1 AAGTAAAGAAATTATGCAAAATCAAAGCAAGATATGATATTAAATTAGTAAAGTCAACTGTACAT
* *
700259 TCTTCTACTACAGTGAAGAAAAGAGAGAGCATGTAATGCAATGTATTAAACAAGATATGATATTG
66 TCTTCCACTACAGTGAAGAAAAGAGAGAGCATGTAATGCAATGTATTAAACAAGATATAATATTG
* * *
700324 AATTAGTAAATTTAATATTTTGATCAACAATATGAAGCCCCGGATATGCGGAAGAAAAACCATAA
131 AATTAGTAAATTCAAGATTTTGATCAACAATATGAAGCCCCGGATATGCCGAAGAAAAACCATAA
* **
700389 ATTATGATAATAGCATTTATATATATGATTACCATAAAGCATCCTTAAATAATAACATGACACAT
196 ATTATGAGAATAGCATTTATATATATGATTACCAT-AAGCATCAGTAAATAATAACATGACACAT
* * *
700454 TATCATTAAATTAAACAAAAAATTATGCATACCAAAGTATCATGGTTCCCAGCTCTTGTTGAGGT
260 CATCATTAAATTAAACAAAAAATAATGCATACCAAAGTATCATGGTTCCCAGCTCTTGTTAAGGT
700519 CTGAAAATCCAAATTAAAAAGTTAAAGTTAGATTGGAGACTTAAATTGAGTAATTAAATTTGTAA
325 CTGAAAATCCAAATTAAAAAGTTAAAGTTAGATTGGAGACTTAAATTGAGTAATTAAATTTGTAA
700584 AAAATTAACCTCTACCTCTTGAAAGTTCGTGTCTCCACTATAAGTGAATCCCCCATGTTGTCTCA
390 AAAATTAACCTCTACCTCTTGAAAGTTCGTGTCTCCACTATAAGTGAATCCCCCATGTTGTCTCA
*
700649 AGTCTCCAATCTCTTCATTGAAATCTTTAAGGACTGACCTGTTAACGATGCTCTTCTTGGCACGA
455 AGTCTCCAAGCTCTTCATTGAAATCTTTAAGGACTGACCTGTTAACGATGCTCTTCTTGGCACGA
700714 ATATGTAAAATTTAGATCAAATCAAATCATTGAAACGAAAAGAACAGAAAAACACAACT-GCATC
520 ATATGTAAAATTTAGATCAAATCAAATCATTGAAACGAAAAGAACAGAAAAACACAA-TGGCATC
700778 AAAATCTTCTTTTCAATCAACAAAACAAAAA
584 AAAATCTTCTTTTCAATCAACAAAACAAAAA
700809 AAAAATCTAG
Statistics
Matches: 579, Mismatches: 33, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
636 212 0.37
637 362 0.63
638 5 0.01
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.29
Consensus pattern (636 bp):
AAGTAAAGAAATTATGCAAAATCAAAGCAAGATATGATATTAAATTAGTAAAGTCAACTGTACAT
TCTTCCACTACAGTGAAGAAAAGAGAGAGCATGTAATGCAATGTATTAAACAAGATATAATATTG
AATTAGTAAATTCAAGATTTTGATCAACAATATGAAGCCCCGGATATGCCGAAGAAAAACCATAA
ATTATGAGAATAGCATTTATATATATGATTACCATAAGCATCAGTAAATAATAACATGACACATC
ATCATTAAATTAAACAAAAAATAATGCATACCAAAGTATCATGGTTCCCAGCTCTTGTTAAGGTC
TGAAAATCCAAATTAAAAAGTTAAAGTTAGATTGGAGACTTAAATTGAGTAATTAAATTTGTAAA
AAATTAACCTCTACCTCTTGAAAGTTCGTGTCTCCACTATAAGTGAATCCCCCATGTTGTCTCAA
GTCTCCAAGCTCTTCATTGAAATCTTTAAGGACTGACCTGTTAACGATGCTCTTCTTGGCACGAA
TATGTAAAATTTAGATCAAATCAAATCATTGAAACGAAAAGAACAGAAAAACACAATGGCATCAA
AATCTTCTTTTCAATCAACAAAACAAAAACATATGAAACGATAATGACTTA
Found at i:704267 original size:94 final size:94
Alignment explanation
Indices: 704075--704269 Score: 304
Period size: 95 Copynumber: 2.1 Consensus size: 94
704065 CGGAGCGGCG
* *
704075 ACTTGATCGACAACGATCAGAGGTACGTAAATCATTAGAATTTATTTACTAAGTTTAATTTCATG
1 ACTTGATCCACAACGATCAGAGGTACCTAAATCATTAGAATTTATTTACTAAGTTTAATTTCATG
704140 ATCTAAATCTCTAATTTAATTTTTTTAAA
66 ATCTAAATCTCTAATTTAATTTTTTTAAA
* *
704169 ACTTGATCCACAGCTATCAGAGGTACCTAAA-CTATTAGGAATTTATTTACTAAGTTTAATTTCA
1 ACTTGATCCACAACGATCAGAGGTACCTAAATC-ATTA-GAATTTATTTACTAAGTTTAATTTCA
* *
704233 TGATCTAAATCTCTAATTTAGTTTTTTT-TA
64 TGATCTAAATCTCTAATTTAATTTTTTTAAA
704263 ACTTGAT
1 ACTTGAT
704270 TTTTCAGGAC
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
93 1 0.01
94 39 0.42
95 53 0.57
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.42
Consensus pattern (94 bp):
ACTTGATCCACAACGATCAGAGGTACCTAAATCATTAGAATTTATTTACTAAGTTTAATTTCATG
ATCTAAATCTCTAATTTAATTTTTTTAAA
Found at i:704525 original size:14 final size:14
Alignment explanation
Indices: 704508--704535 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
704498 CTCCTAACTT
704508 CTTAAATCTTAAAC
1 CTTAAATCTTAAAC
704522 CTTAAATCTTAAAC
1 CTTAAATCTTAAAC
704536 TAAACTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (14 bp):
CTTAAATCTTAAAC
Found at i:706540 original size:20 final size:18
Alignment explanation
Indices: 706497--706531 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
706487 TAAAAATGGT
706497 AAAATTATTATAATTTTC
1 AAAATTATTATAATTTTC
*
706515 AAAATTCTTATAATTTT
1 AAAATTATTATAATTTT
706532 TGCAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAATTATTATAATTTTC
Found at i:710031 original size:20 final size:19
Alignment explanation
Indices: 710006--710080 Score: 82
Period size: 19 Copynumber: 3.9 Consensus size: 19
709996 ATAAAAATTA
710006 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
*
710025 CAAAAATTGAAAATAATTTT
1 -AAAAATTCAAAATAATTTT
* *
710045 TAAAATTCTAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
*
710064 AAAAATTCTAAA-AATTT
1 AAAAATTCAAAATAATTT
710081 ATACTTTTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
18 4 0.08
19 26 0.54
20 18 0.38
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:710081 original size:19 final size:19
Alignment explanation
Indices: 709997--710083 Score: 74
Period size: 19 Copynumber: 4.6 Consensus size: 19
709987 TCTTCTTTAA
709997 TAAAAA-TTA-AAAAATTC
1 TAAAAATTTATAAAAATTC
* *
710014 AAAATAATTT-TCAAAAATTG
1 TAAA-AATTTAT-AAAAATTC
* *
710034 AAAATAATTT-TTAAAATTC
1 TAAA-AATTTATAAAAATTC
*
710053 TAAATATTTATAAAAATTC
1 TAAAAATTTATAAAAATTC
710072 TAAAAATTTATA
1 TAAAAATTTATA
710084 CTTTTTAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
17 3 0.05
18 6 0.11
19 30 0.53
20 18 0.32
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (19 bp):
TAAAAATTTATAAAAATTC
Found at i:710094 original size:17 final size:16
Alignment explanation
Indices: 710072--710111 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
710062 ATAAAAATTC
*
710072 TAAAAATTTATACTTTT
1 TAAAAAATTAT-CTTTT
*
710089 TAAAAAATTATTTTTT
1 TAAAAAATTATCTTTT
710105 TAAAAAA
1 TAAAAAA
710112 ATCAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAAAAATTATCTTTT
Found at i:711093 original size:22 final size:23
Alignment explanation
Indices: 711050--711093 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
711040 TTAAAATAAT
* *
711050 AAAATTACATTTTTACTATCGTA
1 AAAATTACATATTTAATATCGTA
*
711073 AAAATTACA-ATTTAATTTCGT
1 AAAATTACATATTTAATATCGT
711094 CCCCTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (23 bp):
AAAATTACATATTTAATATCGTA
Found at i:720313 original size:60 final size:59
Alignment explanation
Indices: 720249--720364 Score: 178
Period size: 60 Copynumber: 1.9 Consensus size: 59
720239 GAAGTTGGGT
*
720249 GACCATTTTATAATTTTTCATAGTTAAGTGACCAAAAAATAAACTTACTAATAGTTGAGA
1 GACCATTTTATAACTTTTCATAGTTAAGTGACC-AAAAATAAACTTACTAATAGTTGAGA
* * * *
720309 GACCATTTTGTAACTTTTCATAGTTGAGTGACCAAAAATAAATTTATTAATAGTTG
1 GACCATTTTATAACTTTTCATAGTTAAGTGACCAAAAATAAACTTACTAATAGTTG
720365 GGTGAGTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
59 21 0.41
60 30 0.59
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (59 bp):
GACCATTTTATAACTTTTCATAGTTAAGTGACCAAAAATAAACTTACTAATAGTTGAGA
Found at i:722188 original size:20 final size:20
Alignment explanation
Indices: 722131--722189 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
722121 TCAAACCCCA
*
722131 AAACATAAACCATGAACTTT
1 AAACATAAACCCTGAACTTT
*
722151 --AC--AAACCCT-AGACCTT
1 AAACATAAACCCTGA-ACTTT
722167 AAACATAAACCCTGAACTTT
1 AAACATAAACCCTGAACTTT
722187 AAA
1 AAA
722190 TCTCGAACCT
Statistics
Matches: 30, Mismatches: 3, Indels: 12
0.67 0.07 0.27
Matches are distributed among these distances:
15 1 0.03
16 10 0.33
18 4 0.13
20 14 0.47
21 1 0.03
ACGTcount: A:0.47, C:0.25, G:0.05, T:0.22
Consensus pattern (20 bp):
AAACATAAACCCTGAACTTT
Found at i:724632 original size:33 final size:33
Alignment explanation
Indices: 724590--724717 Score: 166
Period size: 33 Copynumber: 3.7 Consensus size: 33
724580 TTGAGAGTTC
724590 ATGCCTGCACTCAGCATCAAGGAGTTCACACCT
1 ATGCCTGCACTCAGCATCAAGGAGTTCACACCT
*
724623 ATGCCTGCACTCGGCATCAAGGAGTTCACACCT
1 ATGCCTGCACTCAGCATCAAGGAGTTCACACCT
* *
724656 ATGCCTGCACTCGGCACCGGTATCAAGGAGTTCACACCC
1 ATGCCTGCACT---CA---GCATCAAGGAGTTCACACCT
*
724695 ATGCCTGCACTCGGCATCAAGGA
1 ATGCCTGCACTCAGCATCAAGGA
724718 TCTCGACATC
Statistics
Matches: 83, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
33 52 0.63
36 2 0.02
39 29 0.35
ACGTcount: A:0.25, C:0.34, G:0.22, T:0.20
Consensus pattern (33 bp):
ATGCCTGCACTCAGCATCAAGGAGTTCACACCT
Found at i:724692 original size:39 final size:40
Alignment explanation
Indices: 724629--724710 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 40
724619 ACCTATGCCT
*
724629 GCACTCGGCATCAAGGAGTTCACACCTATGCCTGCACTCG
1 GCACTCGGCATCAAGGAGTTCACACCCATGCCTGCACTCG
*
724669 GCAC-CGGTATCAAGGAGTTCACACCCATGCCTGCACTCG
1 GCACTCGGCATCAAGGAGTTCACACCCATGCCTGCACTCG
724708 GCA
1 GCA
724711 TCAAGGATCT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 36 0.90
40 4 0.10
ACGTcount: A:0.23, C:0.35, G:0.23, T:0.18
Consensus pattern (40 bp):
GCACTCGGCATCAAGGAGTTCACACCCATGCCTGCACTCG
Found at i:725102 original size:33 final size:33
Alignment explanation
Indices: 725060--725148 Score: 169
Period size: 33 Copynumber: 2.7 Consensus size: 33
725050 TTGAGAGTTT
*
725060 ATGCCTGCACTCAGCATCAAGGAGTTCACACCC
1 ATGCCTGCACTCGGCATCAAGGAGTTCACACCC
725093 ATGCCTGCACTCGGCATCAAGGAGTTCACACCC
1 ATGCCTGCACTCGGCATCAAGGAGTTCACACCC
725126 ATGCCTGCACTCGGCATCAAGGA
1 ATGCCTGCACTCGGCATCAAGGA
725149 TCTCGACATC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.26, C:0.35, G:0.21, T:0.18
Consensus pattern (33 bp):
ATGCCTGCACTCGGCATCAAGGAGTTCACACCC
Found at i:728467 original size:27 final size:29
Alignment explanation
Indices: 728419--728473 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
728409 TTTATTTTAA
728419 TAAAAATTGTAAAAATTATTAT-AATTTT
1 TAAAAATTGTAAAAATTATTATCAATTTT
** *
728447 TAAAAATT-TAAATTTTCTTATCAATTT
1 TAAAAATTGTAAAAATTATTATCAATTT
728474 AAAATTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (29 bp):
TAAAAATTGTAAAAATTATTATCAATTTT
Found at i:732537 original size:84 final size:84
Alignment explanation
Indices: 732388--732554 Score: 219
Period size: 84 Copynumber: 2.0 Consensus size: 84
732378 AGTCCGTTGC
* * * * *
732388 CGCCATCTTGTACTTGAGGTGTCGCACTACCAAGCCGTCGAAGGCTTCCTGTAGATTCGATGCTG
1 CGCCATCTTGTACTTCAGGCGTCGCACTACCAAGCCGTCGAAGGCTTCCCGTAGATTCCAGGCTG
732453 GACAACAGCAGTCCGTCCA
66 GACAACAGCAGTCCGTCCA
* * * * * *
732472 CGCCATAC-TGTACTTCAGGCGTCGCCCTCCCAGGCTGTCGAAGGTTTCCCGTAGGTTCCAGGCT
1 CGCCAT-CTTGTACTTCAGGCGTCGCACTACCAAGCCGTCGAAGGCTTCCCGTAGATTCCAGGCT
732536 GGACAACAGCAGTCCGTCC
65 GGACAACAGCAGTCCGTCC
732555 GCGCTAGTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 70 0.99
85 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.26, T:0.23
Consensus pattern (84 bp):
CGCCATCTTGTACTTCAGGCGTCGCACTACCAAGCCGTCGAAGGCTTCCCGTAGATTCCAGGCTG
GACAACAGCAGTCCGTCCA
Found at i:738690 original size:22 final size:22
Alignment explanation
Indices: 738647--738690 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
738637 CGTTATAATT
* *
738647 ATTTTAATAAATATATATTAAA
1 ATTTTAATAAACATATAATAAA
*
738669 ATTTTAATAAACATTTAATAAA
1 ATTTTAATAAACATATAATAAA
738691 TAATTGTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTTAATAAACATATAATAAA
Found at i:739089 original size:11 final size:11
Alignment explanation
Indices: 739073--739100 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
739063 GCTATAATTG
739073 TAGGTACAATA
1 TAGGTACAATA
739084 TAGGTACAATA
1 TAGGTACAATA
739095 TAGGTA
1 TAGGTA
739101 TAAGTTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (11 bp):
TAGGTACAATA
Found at i:739542 original size:45 final size:46
Alignment explanation
Indices: 739471--739557 Score: 115
Period size: 45 Copynumber: 1.9 Consensus size: 46
739461 AGTTCATACA
** *
739471 TGCACTCGGCATCAAGGAGTTTTCACCTATGCCTGCACTCGGCATC
1 TGCACTCGGCATCAAGGAGTCCTCACCTATGCCTACACTCGGCATC
*
739517 TGCA-TCGGCATC-AGCGAGTCCTCACCTTTGCCTACACTCGG
1 TGCACTCGGCATCAAG-GAGTCCTCACCTATGCCTACACTCGG
739558 GACATGAGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 2 0.06
45 30 0.83
46 4 0.11
ACGTcount: A:0.18, C:0.34, G:0.22, T:0.25
Consensus pattern (46 bp):
TGCACTCGGCATCAAGGAGTCCTCACCTATGCCTACACTCGGCATC
Found at i:740028 original size:42 final size:42
Alignment explanation
Indices: 739970--740054 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
739960 AGATGGGATT
*
739970 ATAAATAAGTCCAACTTCCATCACCAAAAGCTCGAGATTTTA
1 ATAAATAAGTCCAACTTACATCACCAAAAGCTCGAGATTTTA
740012 ATAAATAAGTCCAACTTACATCACCAAAAGCTCGAGATTTTA
1 ATAAATAAGTCCAACTTACATCACCAAAAGCTCGAGATTTTA
740054 A
1 A
740055 CTTTCTCTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.26
Consensus pattern (42 bp):
ATAAATAAGTCCAACTTACATCACCAAAAGCTCGAGATTTTA
Found at i:740931 original size:23 final size:24
Alignment explanation
Indices: 740905--740950 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
740895 AATGAAAGTT
740905 TAAAGAACATAAAA-GAAAAAAAA
1 TAAAGAACATAAAACGAAAAAAAA
** *
740928 TAAATTACTTAAAACGAAAAAAA
1 TAAAGAACATAAAACGAAAAAAA
740951 TATGGGGATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.15
Consensus pattern (24 bp):
TAAAGAACATAAAACGAAAAAAAA
Found at i:741276 original size:67 final size:67
Alignment explanation
Indices: 741196--741325 Score: 260
Period size: 67 Copynumber: 1.9 Consensus size: 67
741186 TCAGAGTATG
741196 CTCGCTCGCGCTCATCGCGAGAAAGTTATGTTGAAGTTGAATATGCTCGTGCCCATCGCGAGATA
1 CTCGCTCGCGCTCATCGCGAGAAAGTTATGTTGAAGTTGAATATGCTCGTGCCCATCGCGAGATA
741261 CT
66 CT
741263 CTCGCTCGCGCTCATCGCGAGAAAGTTATGTTGAAGTTGAATATGCTCGTGCCCATCGCGAGA
1 CTCGCTCGCGCTCATCGCGAGAAAGTTATGTTGAAGTTGAATATGCTCGTGCCCATCGCGAGA
741326 AAGTTATGTC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.26
Consensus pattern (67 bp):
CTCGCTCGCGCTCATCGCGAGAAAGTTATGTTGAAGTTGAATATGCTCGTGCCCATCGCGAGATA
CT
Found at i:743803 original size:18 final size:19
Alignment explanation
Indices: 743774--743814 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
743764 TTCTAATCAT
743774 TATTTAACAATTTTGATGA
1 TATTTAACAATTTTGATGA
*
743793 TATTT-ACAATTTTTATGA
1 TATTTAACAATTTTGATGA
743811 -ATTT
1 TATTT
743815 TAAATATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 12 0.57
19 5 0.24
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (19 bp):
TATTTAACAATTTTGATGA
Found at i:748310 original size:35 final size:35
Alignment explanation
Indices: 748263--748334 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
748253 ATTTATTTAA
748263 TTGAGCCATAAATAAATTATACAAAGCCAGAAATT
1 TTGAGCCATAAATAAATTATACAAAGCCAGAAATT
* * *
748298 TTGAGCCGTAAATAAATTATTCGAAGCCAGAAATT
1 TTGAGCCATAAATAAATTATACAAAGCCAGAAATT
748333 TT
1 TT
748335 AGGGGGCGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (35 bp):
TTGAGCCATAAATAAATTATACAAAGCCAGAAATT
Found at i:749758 original size:31 final size:32
Alignment explanation
Indices: 749720--749798 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 32
749710 GAGAGTTCGT
749720 GTAAAAA-TGTAGGCCCGAAAT-ATGGGCTTGG
1 GTAAAAATTG-AGGCCCGAAATCATGGGCTTGG
***
749751 GTAAAAATTGAGGCCCGTTTTCATGGGCTTGG
1 GTAAAAATTGAGGCCCGAAATCATGGGCTTGG
*
749783 ATAAAAATTGAGGCCC
1 GTAAAAATTGAGGCCC
749799 ATTTAGAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
31 15 0.36
32 27 0.64
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.25
Consensus pattern (32 bp):
GTAAAAATTGAGGCCCGAAATCATGGGCTTGG
Found at i:749870 original size:13 final size:15
Alignment explanation
Indices: 749846--749897 Score: 77
Period size: 15 Copynumber: 3.3 Consensus size: 15
749836 GGCCAACTAA
*
749846 TTTTATATATATATT
1 TTTTAAATATATATT
749861 TTTTAAATATATATT
1 TTTTAAATATATATT
749876 TTTTAAATATAATAGTT
1 TTTTAAATAT-ATA-TT
749893 TTTTA
1 TTTTA
749898 TTTTAAGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
15 24 0.71
16 3 0.09
17 7 0.21
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
TTTTAAATATATATT
Found at i:750149 original size:9 final size:9
Alignment explanation
Indices: 750135--750178 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
750125 TTTTGTTACA
750135 ACAATTAAT
1 ACAATTAAT
750144 ACAATTAAT
1 ACAATTAAT
*
750153 ATAATT-A-
1 ACAATTAAT
750160 ACAATTAAT
1 ACAATTAAT
750169 ACAATTAAT
1 ACAATTAAT
750178 A
1 A
750179 ATTTGATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 5 0.16
8 2 0.06
9 24 0.77
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (9 bp):
ACAATTAAT
Found at i:750165 original size:16 final size:16
Alignment explanation
Indices: 750144--750181 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
750134 AACAATTAAT
*
750144 ACAATTAATATAATTA
1 ACAATTAATACAATTA
750160 ACAATTAATACAATTA
1 ACAATTAATACAATTA
*
750176 ATAATT
1 ACAATT
750182 TGATAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (16 bp):
ACAATTAATACAATTA
Found at i:752462 original size:32 final size:32
Alignment explanation
Indices: 752425--752489 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
752415 AGTATGAGAA
*
752425 TGGCATGTATATGATTATACGAGAAAGGATGG
1 TGGCATGTATATGATTATACGAGAAAGCATGG
752457 TGGCATGTATATGATTATACGAGAAAGCATGG
1 TGGCATGTATATGATTATACGAGAAAGCATGG
752489 T
1 T
752490 ATAAAATTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (32 bp):
TGGCATGTATATGATTATACGAGAAAGCATGG
Found at i:753418 original size:4 final size:4
Alignment explanation
Indices: 753411--753444 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
753401 TACATATATA
753411 TATG TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TA
753445 AATCATACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:756837 original size:42 final size:42
Alignment explanation
Indices: 756778--756859 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
756768 AGTGAGTTAA
* *
756778 AAATCCTTTTCATGGCTGGAACGAGGCAACAATGGCACTTCG
1 AAATCATTTTCATGGCTGGAACGAGGCAACAAGGGCACTTCG
756820 AAATCATTTTCATGGCTGGAACGAGGCAACAAGGGCACTT
1 AAATCATTTTCATGGCTGGAACGAGGCAACAAGGGCACTT
756860 TTTTGTGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.23
Consensus pattern (42 bp):
AAATCATTTTCATGGCTGGAACGAGGCAACAAGGGCACTTCG
Found at i:757931 original size:23 final size:23
Alignment explanation
Indices: 757903--757996 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
757893 ATGTGTGTAT
* *
757903 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
757926 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
757949 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
757972 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
757995 CT
1 CT
757997 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:762412 original size:23 final size:23
Alignment explanation
Indices: 762384--762477 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
762374 ATGTGTGTAT
* *
762384 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
762407 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
762430 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
762453 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
762476 CT
1 CT
762478 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:767441 original size:105 final size:105
Alignment explanation
Indices: 767304--767513 Score: 350
Period size: 105 Copynumber: 2.0 Consensus size: 105
767294 TAGAACTACC
* * * * *
767304 CATAGCGACTCCTAATCCATAAATAGGGGGATAATGCACTTTAACACACT-AGAACTCACATTCT
1 CATAGCCACTCCTAACCCATAAATAGGAGGATAATGCACTTCAACACACTCA-AAATCACATTCT
767368 CTTACATTGACAACAATATCCATACTAATCGAACTAAAATT
65 CTTACATTGACAACAATATCCATACTAATCGAACTAAAATT
767409 CATAGCCACTCCTAACCCATAAATAGGAGGATAATGCACTTCAACACACTCAAAATCACATTCTC
1 CATAGCCACTCCTAACCCATAAATAGGAGGATAATGCACTTCAACACACTCAAAATCACATTCTC
*
767474 TTACATTGACAACAATATCCATACTAATCGAGCTAAAATT
66 TTACATTGACAACAATATCCATACTAATCGAACTAAAATT
767514 TAATTGACAA
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
105 97 0.99
106 1 0.01
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.26
Consensus pattern (105 bp):
CATAGCCACTCCTAACCCATAAATAGGAGGATAATGCACTTCAACACACTCAAAATCACATTCTC
TTACATTGACAACAATATCCATACTAATCGAACTAAAATT
Done.