Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 90 of 125
Found at i:27452554 original size:3 final size:3
Alignment explanation
Indices: 27452546--27452572 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
27452536 TTATGATATT
27452546 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
27452573 AGGGATGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:27453888 original size:5 final size:5
Alignment explanation
Indices: 27453878--27453911 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
27453868 CGTCCTGAAA
27453878 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
27453912 AGGGATCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:27455152 original size:85 final size:85
Alignment explanation
Indices: 27455009--27455169 Score: 225
Period size: 85 Copynumber: 1.9 Consensus size: 85
27454999 CCCATCTTTC
* ** *
27455009 TGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAACGGTCATCTTCTTGATGAGATACAGAGAA
1 TGATGAGATACAGAGAAGTGGATCAAAGCAATAAAACGACCATCTTCTTGATGAGATACAGAAAA
27455074 GTAGACCAAATCCGTCTTCT
66 GTAGACCAAATCCGTCTTCT
* * * * *
27455094 TGATGAGATATAGAGAAGTGGATTAAATCAATGAAGCGACCATCTTTCTT-ATGAGATACAGAAA
1 TGATGAGATACAGAGAAGTGGATCAAAGCAATAAAACGACCATC-TTCTTGATGAGATACAGAAA
27455158 AGTAGACCAAAT
65 AGTAGACCAAAT
27455170 TAATAAAGCG
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
85 61 0.92
86 5 0.08
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.24
Consensus pattern (85 bp):
TGATGAGATACAGAGAAGTGGATCAAAGCAATAAAACGACCATCTTCTTGATGAGATACAGAAAA
GTAGACCAAATCCGTCTTCT
Found at i:27455294 original size:208 final size:208
Alignment explanation
Indices: 27454926--27456503 Score: 1926
Period size: 208 Copynumber: 7.5 Consensus size: 208
27454916 CTTCAAAAGG
* * * * *
27454926 TCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATAAAGCGAAACTCAATAC-AATGAG
1 TCATCTTTCTTATGAGATACAGAAAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAG
* * * *
27454990 ACTTCAAACCCCATCTTTCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAACGGTCATCTT
66 ACTTCAAACCCCATCTTCCTGATGAGATACAGAAAAGTGGGTCAAAGCAATAAAGCAGTCATCTT
* *
27455055 CTTGATGAGATACAGAGAAGTAGACCAAATCCGTCTTCTTGATGAGATATAGAGAAGTGGATTAA
131 CTTGATGAGATACAGAGAAGTAGACCAAATCCGCCTTCTTGATGAGATACAGAGAAGTGGATTAA
27455120 ATCAATGAAGCGA
196 ATCAATGAAGCGA
* * * * *
27455133 CCATCTTTCTTATGAGATACAGAAAAGTAGACCAAATTAATAAAGCGAAGCTCAATACGAATAAT
1 TCATCTTTCTTATGAGATACAGAAAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAG
**
27455198 ACTTCAAACCCCATCTTCCTGATGAGATACAGAAAAGTGGGTCAAAGCAATAAAGCAACCATCTT
66 ACTTCAAACCCCATCTTCCTGATGAGATACAGAAAAGTGGGTCAAAGCAATAAAGCAGTCATCTT
* * * *
27455263 CTTGATAAGATACAGAGAAATGGAGCAAATCCGCCTTCTTGATGAGATACAGAGAAGTGGATTAA
131 CTTGATGAGATACAGAGAAGTAGACCAAATCCGCCTTCTTGATGAGATACAGAGAAGTGGATTAA
*
27455328 ATCAATGAAG-TA
196 ATCAATGAAGCGA
* *
27455340 GTCATC-TTCTTGATGAGATACA-AAGAAGTAGACCAAATCAATTAAGCGAAGCTTAATACGAAT
1 -TCATCTTTCTT-ATGAGATACAGAA-AAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAAT
* * * * *
27455403 GAGACTTTAAACCCCATCTTCCTGATAAGATATAGAGAAGTGGGTCAAAGCAATAAAGC-GACCA
63 GAGACTTCAAACCCCATCTTCCTGATGAGATACAGAAAAGTGGGTCAAAGCAATAAAGCAG-TCA
* * * *
27455467 TCTTCCTGATGAGATATAGAGAAGTAGACCAAATCCGCCTTCATGATGAGATATAGAGAAGTGGA
127 TCTTCTTGATGAGATACAGAGAAGTAGACCAAATCCGCCTTCTTGATGAGATACAGAGAAGTGGA
* *
27455532 TTAAATCGATGAAGCGG
192 TTAAATCAATGAAGCGA
* *
27455549 TCATC-TTCTTGATGAGATACA-AAGAAGTAGACTAAATTAATGAAGCGAAGCTCAATACGAATG
1 TCATCTTTCTT-ATGAGATACAGAA-AAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATG
** * *
27455612 AGACTTTGAATCCCATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAG-AGGTCAT
64 AGACTTCAAACCCCATCTTCCTGATGAGATACAGAAAAGTGGGTCAAAGCAATAAAGCA-GTCAT
* * * * * *
27455676 TTTTTTGATGAAATACAGAGAAGTAGACCAAATCCGTCTTCCTGATAAGATACAGAGAAGTGGAT
128 CTTCTTGATGAGATACAGAGAAGTAGACCAAATCCGCCTTCTTGATGAGATACAGAGAAGTGGAT
*
27455741 TAAATCAATGAAGTGA
193 TAAATCAATGAAGCGA
*
27455757 TCAT-TTTCTTGATGAGATACA-AAGAAGTAGACCAAATCAATGAAGTAGAA-CTCAATACGAAT
1 TCATCTTTCTT-ATGAGATACAGAA-AAGTAGACCAAATCAATGAAG-CGAAGCTCAATACGAAT
* * * *
27455819 GAGACTTCAAACCTCATATTCCCGATGAGATACAGAAAAGTGGGTCAAAGCAATAAAGCGGTCAT
63 GAGACTTCAAACCCCATCTTCCTGATGAGATACAGAAAAGTGGGTCAAAGCAATAAAGCAGTCAT
* *
27455884 CTTCTTGATGAGATACAGAGAAGTGGACCAAATCTGCCTTCTTGATGAGATACAGAGAAGTGGAT
128 CTTCTTGATGAGATACAGAGAAGTAGACCAAATCCGCCTTCTTGATGAGATACAGAGAAGTGGAT
*
27455949 TAAATCAAAGAAGCGA
193 TAAATCAATGAAGCGA
* * * * *
27455965 TCATCTTTCTGATAAGATACAGAGAGGTAGACC-AATCAATGAAGCGAAGCTCAATACGAATAAG
1 TCATCTTTCTTATGAGATACAGAAAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAG
* * *
27456029 ACTTCAAAACTCATCTTCCTGATGAGATACAGAAAAGTGGGTCAAAGCAATAAAGCAGCCATCTT
66 ACTTCAAACCCCATCTTCCTGATGAGATACAGAAAAGTGGGTCAAAGCAATAAAGCAGTCATCTT
* * * * *
27456094 CCTGATAAGATTCAGAGAAGTGGACCAAATCCGCCTTCTTGATGAGATACAAAGAAGTGGATTAA
131 CTTGATGAGATACAGAGAAGTAGACCAAATCCGCCTTCTTGATGAGATACAGAGAAGTGGATTAA
*
27456159 ATCAATGAAGCGG
196 ATCAATGAAGCGA
* * * * * *
27456172 TCATCTTCCTAATAAGATACAGAGAAGTAGACCAAATTAATGAAGCGAAGCTCAATATGAATGAG
1 TCATCTTTCTTATGAGATACAGAAAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAG
*
27456237 A-TATAGGGAAGCAATAAAGAGGTCATCTTCCCATGTTCCTGATGAGATACA-AATAAGTGGGTC
66 ACT-T-------C-----A-A----A-C--CCCATCTTCCTGATGAGATACAGAA-AAGTGGGTC
* * * * * *
27456300 AAAGCAATAAAG-AGGTCATCTTCTTGATGAGATATAGGGAAGTAGATCAAATCCGTCTTCCTAA
109 AAAGCAATAAAGCA-GTCATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCCGCCTTCTTGA
* *
27456364 TGAGATACAGATAAGTGGATTAAAATCAATGAAGCGG
173 TGAGATACAGAGAAGTGGATT-AAATCAATGAAGCGA
* * * *
27456401 TCATCTTCCTGATGAGATATAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAG
1 TCATCTTTCTTATGAGATACAGAAAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAG
*
27456466 ACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGT
66 ACTTCAAACCCCATCTTCCTGATGAGATACAGAAAAGT
27456504 AGACCAAATC
Statistics
Matches: 1198, Mismatches: 132, Indels: 80
0.85 0.09 0.06
Matches are distributed among these distances:
206 3 0.00
207 247 0.21
208 723 0.60
209 35 0.03
210 1 0.00
211 1 0.00
212 1 0.00
215 1 0.00
216 1 0.00
217 1 0.00
220 1 0.00
221 1 0.00
222 1 0.00
225 1 0.00
227 3 0.00
228 99 0.08
229 77 0.06
230 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.24
Consensus pattern (208 bp):
TCATCTTTCTTATGAGATACAGAAAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAG
ACTTCAAACCCCATCTTCCTGATGAGATACAGAAAAGTGGGTCAAAGCAATAAAGCAGTCATCTT
CTTGATGAGATACAGAGAAGTAGACCAAATCCGCCTTCTTGATGAGATACAGAGAAGTGGATTAA
ATCAATGAAGCGA
Found at i:27455377 original size:85 final size:85
Alignment explanation
Indices: 27455212--27455378 Score: 208
Period size: 85 Copynumber: 2.0 Consensus size: 85
27455202 CAAACCCCAT
*
27455212 CTTCCTGATGAGATACAGAAAAGTGGGTCAAAGCAATAAAGCAACCATCTTCTTGATAAGATACA
1 CTTCCTGATGAGATACAGAAAAGTGGATCAAAGCAATAAAGCAACCATCTTCTTGATAAGATACA
* * *
27455277 GAGAAATGGAGCAAATCCGC
66 AAGAAATAGACCAAATCCGC
* * * * * * ** *
27455297 CTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGTAGTCATCTTCTTGATGAGATACA
1 CTTCCTGATGAGATACAGAAAAGTGGATCAAAGCAATAAAGCAACCATCTTCTTGATAAGATACA
*
27455362 AAGAAGTAGACCAAATC
66 AAGAAATAGACCAAATC
27455379 AATTAAGCGA
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (85 bp):
CTTCCTGATGAGATACAGAAAAGTGGATCAAAGCAATAAAGCAACCATCTTCTTGATAAGATACA
AAGAAATAGACCAAATCCGC
Found at i:27455575 original size:85 final size:85
Alignment explanation
Indices: 27455420--27455585 Score: 215
Period size: 85 Copynumber: 2.0 Consensus size: 85
27455410 TAAACCCCAT
* * *
27455420 CTTCCTGATAAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGACCATCTTCCTGATGAGATATA
1 CTTCATGATAAGATATAGAGAAGTGGATCAAAGCAATAAAGCGACCATCTTCCTGATGAGATACA
*
27455485 GAGAAGTAGACCAAATCCGC
66 AAGAAGTAGACCAAATCCGC
* * * * * ** *
27455505 CTTCATGATGAGATATAGAGAAGTGGATTAAATCGATGAAGCGGTCATCTTCTTGATGAGATACA
1 CTTCATGATAAGATATAGAGAAGTGGATCAAAGCAATAAAGCGACCATCTTCCTGATGAGATACA
*
27455570 AAGAAGTAGACTAAAT
66 AAGAAGTAGACCAAAT
27455586 TAATGAAGCG
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (85 bp):
CTTCATGATAAGATATAGAGAAGTGGATCAAAGCAATAAAGCGACCATCTTCCTGATGAGATACA
AAGAAGTAGACCAAATCCGC
Found at i:27455761 original size:85 final size:85
Alignment explanation
Indices: 27455627--27455794 Score: 246
Period size: 85 Copynumber: 2.0 Consensus size: 85
27455617 TTGAATCCCA
* * * *
27455627 TCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGAGGTCATTTTTTTGATGAAATAC
1 TCTTCCTGATAAGATACAGAGAAGTGGATCAAAGCAATAAAGAGATCATTTTCTTGATGAAATAC
*
27455692 AGAGAAGTAGACCAAATCCG
66 AAAGAAGTAGACCAAATCCG
* * * * *
27455712 TCTTCCTGATAAGATACAGAGAAGTGGATTAAATCAATGAAGTGATCATTTTCTTGATGAGATAC
1 TCTTCCTGATAAGATACAGAGAAGTGGATCAAAGCAATAAAGAGATCATTTTCTTGATGAAATAC
27455777 AAAGAAGTAGACCAAATC
66 AAAGAAGTAGACCAAATC
27455795 AATGAAGTAG
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 73 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (85 bp):
TCTTCCTGATAAGATACAGAGAAGTGGATCAAAGCAATAAAGAGATCATTTTCTTGATGAAATAC
AAAGAAGTAGACCAAATCCG
Found at i:27455985 original size:85 final size:85
Alignment explanation
Indices: 27455842--27455999 Score: 212
Period size: 85 Copynumber: 1.9 Consensus size: 85
27455832 TCATATTCCC
* * *
27455842 GATGAGATACAGAAAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCTTGATGAGATACAGAGAAG
1 GATGAGATACAGAAAAGTGGATCAAAGCAATAAAGCGATCATCTTCTTGATAAGATACAGAGAAG
*
27455907 TGGACCAAATCTGCCTTCTT
66 TAGACCAAATCTGCCTTCTT
* * *
27455927 GATGAGATACAGAGAAGTGGATTAAATCAA-AGAAGCGATCATCTT-TCTGATAAGATACAGAGA
1 GATGAGATACAGAAAAGTGGATCAAAGCAATA-AAGCGATCATCTTCT-TGATAAGATACAGAGA
*
27455990 GGTAGACCAA
64 AGTAGACCAA
27456000 TCAATGAAGC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 2 0.03
85 61 0.97
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.22
Consensus pattern (85 bp):
GATGAGATACAGAAAAGTGGATCAAAGCAATAAAGCGATCATCTTCTTGATAAGATACAGAGAAG
TAGACCAAATCTGCCTTCTT
Found at i:27456195 original size:85 final size:85
Alignment explanation
Indices: 27456043--27456208 Score: 226
Period size: 85 Copynumber: 2.0 Consensus size: 85
27456033 CAAAACTCAT
* * *
27456043 CTTCCTGATGAGATACAGAAAAGTGGGTCAAAGCAATAAAGCAGCCATCTTCCTGATAAGATTCA
1 CTTCCTGATGAGATACAGAAAAGTGGATCAAAGCAATAAAGCAGCCATCTTCCTAATAAGATACA
*
27456108 GAGAAGTGGACCAAATCCGC
66 GAGAAGTAGACCAAATCCGC
* * * * * *
27456128 CTTCTTGATGAGATACA-AAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCCTAATAAGATAC
1 CTTCCTGATGAGATACAGAA-AAGTGGATCAAAGCAATAAAGCAGCCATCTTCCTAATAAGATAC
27456192 AGAGAAGTAGACCAAAT
65 AGAGAAGTAGACCAAAT
27456209 TAATGAAGCG
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
84 2 0.03
85 68 0.97
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (85 bp):
CTTCCTGATGAGATACAGAAAAGTGGATCAAAGCAATAAAGCAGCCATCTTCCTAATAAGATACA
GAGAAGTAGACCAAATCCGC
Found at i:27456598 original size:48 final size:47
Alignment explanation
Indices: 27456546--27456692 Score: 118
Period size: 48 Copynumber: 3.3 Consensus size: 47
27456536 GAAGTGGATT
*
27456546 AAATCAATGAAGCGCTCATCTTCCTGATAAGATATAGGTAAGTAGACC
1 AAATCAATGAAGCGCTCATCTTCCTGATAAGATAAAGG-AAGTAGACC
* * * **
27456594 AAATC-------CG----TCTTCCTGATAAGATACAGAAAAGTGGATT
1 AAATCAATGAAGCGCTCATCTTCCTGATAAGATAAAG-GAAGTAGACC
* *
27456631 AAATCAATGAAGCGCTCATCTTCCTGATGAGATACAAAGAAGTAGACC
1 AAATCAATGAAGCGCTCATCTTCCTGATAAGATA-AAGGAAGTAGACC
27456679 AAATCAATGAAGCG
1 AAATCAATGAAGCG
27456693 AAGTTCAATG
Statistics
Matches: 74, Mismatches: 12, Indels: 26
0.66 0.11 0.23
Matches are distributed among these distances:
37 29 0.39
41 2 0.03
44 2 0.03
48 40 0.54
49 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.23
Consensus pattern (47 bp):
AAATCAATGAAGCGCTCATCTTCCTGATAAGATAAAGGAAGTAGACC
Found at i:27456620 original size:85 final size:84
Alignment explanation
Indices: 27456477--27456683 Score: 324
Period size: 85 Copynumber: 2.4 Consensus size: 84
27456467 CTTCAAACCC
* * *
27456477 CATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCCGTCTTCCTAATGAGATACAGAGAAGTG
1 CATCTTCCTGATGAGATAAAG-GAAGTAGACCAAATCCGTCTTCCTAATAAGATACAGAAAAGTG
27456542 GATTAAATCAATGAAGCGCT
65 GATTAAATCAATGAAGCGCT
* * *
27456562 CATCTTCCTGATAAGATATAGGTAAGTAGACCAAATCCGTCTTCCTGATAAGATACAGAAAAGTG
1 CATCTTCCTGATGAGATAAAGG-AAGTAGACCAAATCCGTCTTCCTAATAAGATACAGAAAAGTG
27456627 GATTAAATCAATGAAGCGCT
65 GATTAAATCAATGAAGCGCT
*
27456647 CATCTTCCTGATGAGATACAAAGAAGTAGACCAAATC
1 CATCTTCCTGATGAGATA-AAGGAAGTAGACCAAATC
27456684 AATGAAGCGA
Statistics
Matches: 112, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
84 1 0.01
85 109 0.97
86 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (84 bp):
CATCTTCCTGATGAGATAAAGGAAGTAGACCAAATCCGTCTTCCTAATAAGATACAGAAAAGTGG
ATTAAATCAATGAAGCGCT
Found at i:27456729 original size:245 final size:245
Alignment explanation
Indices: 27456272--27456747 Score: 711
Period size: 246 Copynumber: 1.9 Consensus size: 245
27456262 TCTTCCCATG
* * * * * *
27456272 TTCCTGATGAGATACAAATAAGTGGGTCAAAGCAATAAAGAGGTCATCTTCTTGATGAGATATAG
1 TTCCTAATGAGATACAAAGAAGTGGATCAAAGCAATAAAGAGCTCATCTTCCTGATAAGATATAG
* * * *
27456337 GGAAGTAGATCAAATCCGTCTTCCTAATGAGATACAGATAAGTGGATTAAAATCAATGAAGCGGT
66 GGAAGTAGACCAAATCCGTCTTCCTAATAAGATACAGAAAAGTGGATTAAAATCAATGAAGCGCT
* * *
27456402 CATCTTCCTGATGAGATATAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGA
131 CATCTTCCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAAA
*
27456467 CTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCCGTC
196 CTCCAAACCCCATCTTCCT-ATGAGATACAGAGAAGTAGACCAAATCCGTC
* * * * *
27456518 TTCCTAATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGCTCATCTTCCTGATAAGATATAG
1 TTCCTAATGAGATACAAAGAAGTGGATCAAAGCAATAAAGAGCTCATCTTCCTGATAAGATATAG
* *
27456583 GTAAGTAGACCAAATCCGTCTTCCTGATAAGATACAGAAAAGTGGATT-AAATCAATGAAGCGCT
66 GGAAGTAGACCAAATCCGTCTTCCTAATAAGATACAGAAAAGTGGATTAAAATCAATGAAGCGCT
* * *
27456647 CATCTTCCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAGTTCAATGCGAGTGAAA
131 CATCTTCCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAAA
*
27456712 CTCCAAACCCTATCTTCCTATGAGATACAGAGAAGT
196 CTCCAAACCCCATCTTCCTATGAGATACAGAGAAGT
27456748 GGGTCGAAGT
Statistics
Matches: 205, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
244 17 0.08
245 91 0.44
246 97 0.47
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (245 bp):
TTCCTAATGAGATACAAAGAAGTGGATCAAAGCAATAAAGAGCTCATCTTCCTGATAAGATATAG
GGAAGTAGACCAAATCCGTCTTCCTAATAAGATACAGAAAAGTGGATTAAAATCAATGAAGCGCT
CATCTTCCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAAA
CTCCAAACCCCATCTTCCTATGAGATACAGAGAAGTAGACCAAATCCGTC
Found at i:27457212 original size:17 final size:17
Alignment explanation
Indices: 27457192--27457228 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
27457182 CCCAAACAAA
27457192 AAATAAATTTTAAATTT
1 AAATAAATTTTAAATTT
**
27457209 AAATTTATTTTAAATTT
1 AAATAAATTTTAAATTT
27457226 AAA
1 AAA
27457229 AATGTCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATAAATTTTAAATTT
Found at i:27458621 original size:30 final size:30
Alignment explanation
Indices: 27458565--27458935 Score: 185
Period size: 30 Copynumber: 12.5 Consensus size: 30
27458555 AAACTTTCCA
* *
27458565 AAAATTATATTTTGA-CTCTAAACTTTTTT
1 AAAATTACATTTTAACCTCTAAACTTTTTT
* *
27458594 GAAATTGA-ATTTTAACCTCTGAACTTTTTT
1 AAAATT-ACATTTTAACCTCTAAACTTTTTT
**
27458624 AAAATTACATTTTAACCT-TCAAACTTTTCC
1 AAAATTACATTTTAACCTCT-AAACTTTTTT
* * * * *
27458654 AAAATCACATTTTGACCCCTAAAACTCTTCT
1 AAAATTACATTTTAACCTCT-AAACTTTTTT
* *
27458685 AAAATTACATTTTAACC-CTTAA-TTTTTCCC
1 AAAATTACATTTTAACCTCTAAACTTTTT--T
* * **
27458715 AAAATTACTTTTTGATCCT-TAAACTTTTCC
1 AAAATTACATTTT-AACCTCTAAACTTTTTT
*
27458745 AAAA-T-CATATTTAACCTCTAAA-TTTTCCT
1 AAAATTACAT-TTTAACCTCTAAACTTTT-TT
* * ***
27458774 AAAATTATATTTTGACC-CTTAAAC-TTCCC
1 AAAATTACATTTTAACCTC-TAAACTTTTTT
* * *
27458803 AAAATAACATTTTAACCCCTAAACTTTCCTT
1 AAAATTACATTTTAACCTCTAAACTTT-TTT
** * * * *
27458834 -AAAGCACATTTTGACCCCTAAACCTTTCT
1 AAAATTACATTTTAACCTCTAAACTTTTTT
** * **
27458863 AAAAGCACATTTTGACC-CTAAACTTTCCT
1 AAAATTACATTTTAACCTCTAAACTTTTTT
* * *
27458892 AAAATTACATTTTGACCCCTAAA-TTTTTCC
1 AAAATTACATTTTAACCTCTAAACTTTTT-T
27458922 AAAATTACATTTTA
1 AAAATTACATTTTA
27458936 TTCCCAAATT
Statistics
Matches: 270, Mismatches: 49, Indels: 45
0.74 0.13 0.12
Matches are distributed among these distances:
28 13 0.05
29 78 0.29
30 142 0.53
31 33 0.12
32 4 0.01
ACGTcount: A:0.35, C:0.22, G:0.03, T:0.40
Consensus pattern (30 bp):
AAAATTACATTTTAACCTCTAAACTTTTTT
Found at i:27458778 original size:59 final size:58
Alignment explanation
Indices: 27458615--27458935 Score: 288
Period size: 59 Copynumber: 5.4 Consensus size: 58
27458605 TTAACCTCTG
** * * *
27458615 AACTTTTTTAAAATTACATTTTAACCTTCAAACTTTTCC-AAAATCACATTTTGACCCCTAA
1 AACTTTTCCAAAA-TACATTTTAACCCT-AAA-TTTTCCTAAAATTACATTTTGA-CCCTTA
* * * * * *
27458676 AACTCTTCTAAAATTACATTTTAACCCTTAATTTTTCCCAAAATTACTTTTTGATCCTTA
1 AACTTTTCCAAAA-TACATTTTAACCC-TAAATTTTCCTAAAATTACATTTTGACCCTTA
*
27458736 AACTTTTCCAAAAT-CATATTTAACCTCTAAATTTTCCTAAAATTATATTTTGACCCTTA
1 AACTTTTCCAAAATACAT-TTTAACC-CTAAATTTTCCTAAAATTACATTTTGACCCTTA
* * * ** *
27458795 AAC-TTCCCAAAATAACATTTTAACCCCTAAACTTTCCTTAAAGCACATTTTGACCCCTA
1 AACTTTTCCAAAAT-ACATTTTAA-CCCTAAATTTTCCTAAAATTACATTTTGACCCTTA
* * * * * *
27458854 AACCTTTCTAAAAGCACATTTTGACCCTAAACTTTCCTAAAATTACATTTTGACCCCTA
1 AACTTTTCCAAAA-TACATTTTAACCCTAAATTTTCCTAAAATTACATTTTGACCCTTA
*
27458913 AATTTTTCCAAAATTACATTTTA
1 AACTTTTCCAAAA-TACATTTTA
27458936 TTCCCAAATT
Statistics
Matches: 216, Mismatches: 35, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
58 12 0.06
59 122 0.56
60 42 0.19
61 39 0.18
62 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.39
Consensus pattern (58 bp):
AACTTTTCCAAAATACATTTTAACCCTAAATTTTCCTAAAATTACATTTTGACCCTTA
Found at i:27458793 original size:89 final size:89
Alignment explanation
Indices: 27458624--27458934 Score: 326
Period size: 89 Copynumber: 3.5 Consensus size: 89
27458614 GAACTTTTTT
* * *
27458624 AAAATTACATTTT-AACCTTCAAACTTTTCCAAAATCACATTTTGACCCCTAAAACTCTTCTAAA
1 AAAATTACATTTTGACCCCT-AAACTTTTCCAAAATCACATTTTGACCCCT-AAACTTTTCTAAA
* *
27458688 ATTACATTTTAACCCTTAATTTTTCCC
64 ATTACATTTTGACCCTTAA-ATTTCCC
* * * * * *
27458715 AAAATTACTTTTTGATCCTTAAACTTTTCCAAAATCATA-TTTAACCTCTAAA-TTTTCCTAAAA
1 AAAATTACATTTTGACCCCTAAACTTTTCCAAAATCACATTTTGACCCCTAAACTTTT-CTAAAA
* *
27458778 TTATATTTTGACCCTTAAACTTCCC
65 TTACATTTTGACCCTTAAATTTCCC
* * * * *
27458803 AAAATAACATTTTAACCCCTAAAC-TTTCCTTAAAGCACATTTTGACCCCTAAACCTTTCTAAAA
1 AAAATTACATTTTGACCCCTAAACTTTTCC-AAAATCACATTTTGACCCCTAAACTTTTCTAAAA
** *
27458867 GCACATTTTGACCC-TAAACTTTCCT
65 TTACATTTTGACCCTTAAA-TTTCCC
* *
27458892 AAAATTACATTTTGACCCCTAAATTTTTCCAAAATTACATTTT
1 AAAATTACATTTTGACCCCTAAACTTTTCCAAAATCACATTTT
27458935 ATTCCCAAAT
Statistics
Matches: 181, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
87 5 0.03
88 37 0.20
89 88 0.49
90 16 0.09
91 30 0.17
92 5 0.03
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (89 bp):
AAAATTACATTTTGACCCCTAAACTTTTCCAAAATCACATTTTGACCCCTAAACTTTTCTAAAAT
TACATTTTGACCCTTAAATTTCCC
Found at i:27459887 original size:6 final size:7
Alignment explanation
Indices: 27459866--27459891 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
27459856 GGAGTCGAAA
27459866 TTAATTT
1 TTAATTT
27459873 TTAATTT
1 TTAATTT
27459880 TTAATTT
1 TTAATTT
27459887 TTAAT
1 TTAAT
27459892 AATCTACATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTAATTT
Found at i:27461763 original size:13 final size:13
Alignment explanation
Indices: 27461745--27461806 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
27461735 TTAACCCAAG
27461745 CTTTTCAAAAGTA
1 CTTTTCAAAAGTA
27461758 CTTTTCAAAA-TCA
1 CTTTTCAAAAGT-A
*
27461771 CATTTT-AAAAGCA
1 C-TTTTCAAAAGTA
* *
27461784 CTTTTTAAAAATA
1 CTTTTCAAAAGTA
27461797 -TTTTCAAAAG
1 CTTTTCAAAAG
27461807 CAATGCTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
12 13 0.32
13 23 0.57
14 4 0.10
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.39
Consensus pattern (13 bp):
CTTTTCAAAAGTA
Found at i:27462269 original size:5 final size:6
Alignment explanation
Indices: 27462226--27462269 Score: 52
Period size: 6 Copynumber: 6.7 Consensus size: 6
27462216 ATAAACCTGA
27462226 AAAAAG AAAAAG AAACAGAG ACAAAATG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAA-A-AG A-AAAA-G AAAAAG AAAAAG AAAA
27462270 CACAAGATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
6 20 0.59
7 6 0.18
8 6 0.18
9 2 0.06
ACGTcount: A:0.77, C:0.05, G:0.16, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:27464393 original size:23 final size:24
Alignment explanation
Indices: 27464337--27464393 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
27464327 TAGTCTAAAC
27464337 TGAATATAGTATAAAAGAATGTGATA
1 TGAAT-TA-TATAAAAGAATGTGATA
* * *
27464363 TTATTTATATATAAG-ATGTGATA
1 TGAATTATATAAAAGAATGTGATA
27464386 TGAATTAT
1 TGAATTAT
27464394 GCTATATTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 14 0.54
24 7 0.27
25 2 0.08
26 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (24 bp):
TGAATTATATAAAAGAATGTGATA
Found at i:27465823 original size:21 final size:22
Alignment explanation
Indices: 27465794--27465836 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
27465784 TCAAATCGAA
*
27465794 TTGGGTTTAGGAT-TTGGGTTT
1 TTGGGTTTAGGATATTAGGTTT
*
27465815 TTGGTTTTAGGATATTAGGTTT
1 TTGGGTTTAGGATATTAGGTTT
27465837 GGGCTTCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.14, C:0.00, G:0.33, T:0.53
Consensus pattern (22 bp):
TTGGGTTTAGGATATTAGGTTT
Found at i:27472877 original size:18 final size:20
Alignment explanation
Indices: 27472829--27472879 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
27472819 TTTGTTACTA
*
27472829 TAGTGATGAGATTGAATATC
1 TAGTGATGAGATTGAAAATC
*
27472849 GTAGTGGTGAGATT-AAAAT-
1 -TAGTGATGAGATTGAAAATC
27472868 TAGTGATGAGAT
1 TAGTGATGAGAT
27472880 ATGTGATTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 11 0.41
20 4 0.15
21 12 0.44
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.33
Consensus pattern (20 bp):
TAGTGATGAGATTGAAAATC
Found at i:27484622 original size:24 final size:22
Alignment explanation
Indices: 27484577--27484630 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
27484567 AGAATTTTCA
* *
27484577 ATAAATA-AAAAATTATAAAAT
1 ATAAATATTAAAATAATAAAAT
*
27484598 ATTAAAATATTAAAATAATATAAT
1 A-T-AAATATTAAAATAATAAAAT
27484622 ATAAATATT
1 ATAAATATT
27484631 TTTAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 1 0.04
22 8 0.30
23 6 0.22
24 12 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
ATAAATATTAAAATAATAAAAT
Found at i:27484830 original size:5 final size:5
Alignment explanation
Indices: 27484791--27484829 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
27484781 CTTGGCTCGA
* *
27484791 ACCCG ATCCG ACCCG ACCCG ACCCG ACCCG ACCCA ACCC
1 ACCCG ACCCG ACCCG ACCCG ACCCG ACCCG ACCCG ACCC
27484830 ATAAACACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.23, C:0.59, G:0.15, T:0.03
Consensus pattern (5 bp):
ACCCG
Found at i:27484886 original size:2 final size:2
Alignment explanation
Indices: 27484839--27484869 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
27484829 CATAAACACC
27484839 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27484870 CATTATGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27489395 original size:10 final size:10
Alignment explanation
Indices: 27489365--27489389 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
27489355 TGCTGGTTGA
27489365 TCTCCTCTTC
1 TCTCCTCTTC
27489375 TCTCCTCTTC
1 TCTCCTCTTC
27489385 TCTCC
1 TCTCC
27489390 CTTTCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (10 bp):
TCTCCTCTTC
Found at i:27494593 original size:19 final size:20
Alignment explanation
Indices: 27494550--27494594 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
27494540 TTTTTTTTTG
* *
27494550 AATTTTTATGAACTATTTAT
1 AATTTTAATGAACTATATAT
27494570 AATTTTAATGAACTATATAT
1 AATTTTAATGAACTATATAT
27494590 -ATTTT
1 AATTTT
27494595 GATTTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (20 bp):
AATTTTAATGAACTATATAT
Found at i:27496421 original size:32 final size:32
Alignment explanation
Indices: 27496375--27496446 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
27496365 CTCAACTATC
* *
27496375 ACTAAATTTTCTATTGGAAAACCAATTTTATA
1 ACTAAAATTCCTATTGGAAAACCAATTTTATA
*
27496407 ACTAAAATTCCTATTGGAAAACCAATTTTGTA
1 ACTAAAATTCCTATTGGAAAACCAATTTTATA
*
27496439 ACAAAAAT
1 ACTAAAAT
27496447 ATAAAAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (32 bp):
ACTAAAATTCCTATTGGAAAACCAATTTTATA
Found at i:27496654 original size:22 final size:20
Alignment explanation
Indices: 27496629--27496671 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
27496619 AAAAATTATA
*
27496629 TTGTCAAAAATAATTTTATAAT
1 TTGT-AAAAA-AAATTTATAAT
27496651 TTGTAAAAAAAATTTATAAT
1 TTGTAAAAAAAATTTATAAT
27496671 T
1 T
27496672 GCCATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 5 0.25
22 4 0.20
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (20 bp):
TTGTAAAAAAAATTTATAAT
Found at i:27496779 original size:3 final size:3
Alignment explanation
Indices: 27496771--27496843 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
27496761 TTCAAACATA
27496771 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27496819 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
27496844 GAAGATTATT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:27497824 original size:21 final size:20
Alignment explanation
Indices: 27497790--27497832 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
27497780 TCAGAAATAA
27497790 TTTTATAATTTATA-AATTT
1 TTTTATAATTTATACAATTT
27497809 TTTTATAAATTTTATACAATTT
1 TTTTAT-AA-TTTATACAATTT
27497831 TT
1 TT
27497833 ATGATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 2 0.10
21 6 0.29
22 7 0.33
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTATACAATTT
Found at i:27497921 original size:3 final size:3
Alignment explanation
Indices: 27497913--27497937 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27497903 AATTTCAAAC
27497913 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
27497938 AAGATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:27502466 original size:57 final size:57
Alignment explanation
Indices: 27502364--27502473 Score: 152
Period size: 57 Copynumber: 1.9 Consensus size: 57
27502354 AAGAAATCCA
**
27502364 AAAAAAAATTTAACTTTTAAACGCCAAAATTTTTTTTTATTAACTTTTAAAGGGGCTC
1 AAAAAAAATTTAACTTTTAAACGCCAAAA-TTTTTTTTACCAACTTTTAAAGGGGCTC
*
27502422 AAAAAAAATTTTACTTTTAAA-GACTCAAAA-TTTTTTTACCAACTTTTAAAGG
1 AAAAAAAATTTAACTTTTAAACG-C-CAAAATTTTTTTTACCAACTTTTAAAGG
27502474 ATTTAAAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
57 21 0.45
58 21 0.45
59 5 0.11
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (57 bp):
AAAAAAAATTTAACTTTTAAACGCCAAAATTTTTTTTACCAACTTTTAAAGGGGCTC
Found at i:27502471 original size:29 final size:28
Alignment explanation
Indices: 27502434--27502502 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
27502424 AAAAAATTTT
27502434 ACTTTTAAAGACTCAAAAT-TTTTTTACCA
1 ACTTTTAAAGACTCAAAATATTTTTT--CA
* *
27502463 ACTTTTAAAGGATTTAAAATATTTTTTCA
1 ACTTTTAAA-GACTCAAAATATTTTTTCA
27502492 ACTTTTAAAGA
1 ACTTTTAAAGA
27502503 ACCTAAAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
28 2 0.06
29 20 0.56
30 8 0.22
31 6 0.17
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (28 bp):
ACTTTTAAAGACTCAAAATATTTTTTCA
Found at i:27502509 original size:29 final size:27
Alignment explanation
Indices: 27502434--27502511 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 27
27502424 AAAAAATTTT
27502434 ACTTTTAAAGACTCAAAATTTTTTTACCA
1 ACTTTTAAAGACT-AAAATTTTTTTA-CA
*
27502463 ACTTTTAAAGGATTTAAAATATTTTTT-CA
1 ACTTTTAAA-GA-CTAAAAT-TTTTTTACA
27502492 ACTTTTAAAGAACCTAAAAT
1 ACTTTTAAAG-A-CTAAAAT
27502512 CTCATTTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
28 1 0.02
29 27 0.64
30 7 0.17
31 7 0.17
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (27 bp):
ACTTTTAAAGACTAAAATTTTTTTACA
Found at i:27505901 original size:23 final size:20
Alignment explanation
Indices: 27505860--27505906 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
27505850 ACATCTATAT
*
27505860 AAAAAATTCAAAATATTTTA
1 AAAAAATTCAAAAAATTTTA
27505880 AAAAAATTCATAAAAAACTTTTA
1 AAAAAATTC--AAAAAA-TTTTA
27505903 AAAA
1 AAAA
27505907 TTATCCAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 9 0.39
22 5 0.22
23 9 0.39
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAAATTCAAAAAATTTTA
Found at i:27508440 original size:28 final size:27
Alignment explanation
Indices: 27508401--27508460 Score: 111
Period size: 28 Copynumber: 2.2 Consensus size: 27
27508391 ATAATTTAAT
27508401 ATTTTTTCATGTCAATCCCTCTAGAAA
1 ATTTTTTCATGTCAATCCCTCTAGAAA
27508428 ATTTCTTTCATGTCAATCCCTCTAGAAA
1 ATTT-TTTCATGTCAATCCCTCTAGAAA
27508456 ATTTT
1 ATTTT
27508461 GACACTGTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 5 0.16
28 27 0.84
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (27 bp):
ATTTTTTCATGTCAATCCCTCTAGAAA
Found at i:27508469 original size:28 final size:28
Alignment explanation
Indices: 27508408--27508470 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
27508398 AATATTTTTT
**
27508408 CATGTCAATCCCTCTAGAAAATTTCTTT
1 CATGTCAATCCCTCTAGAAAATTTCTGA
27508436 CATGTCAATCCCTCTAGAAAATTT-TGA
1 CATGTCAATCCCTCTAGAAAATTTCTGA
27508463 CACTGTCA
1 CA-TGTCA
27508471 CTAATCATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 3 0.09
28 29 0.91
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
CATGTCAATCCCTCTAGAAAATTTCTGA
Found at i:27509406 original size:27 final size:26
Alignment explanation
Indices: 27509315--27509421 Score: 92
Period size: 27 Copynumber: 4.0 Consensus size: 26
27509305 CAATTTCAAA
27509315 TTTTATTTTTATTTAATTATAATATAT
1 TTTTATTTTTATTTAATTATAATAT-T
* *
27509342 ATTTTAAATTTTATTTAATTAAAACTA-T
1 -TTTT-ATTTTTATTTAATTATAA-TATT
* *
27509370 TTATATTTTTTAGTTAATTATAATGATT
1 TTTTA-TTTTTATTTAATTATAAT-ATT
* *
27509398 TTTTA-TTTTATTTATTTTTAATAT
1 TTTTATTTTTATTTAATTATAATAT
27509422 AATCATTTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
25 2 0.03
26 16 0.25
27 18 0.28
28 10 0.16
29 16 0.25
30 2 0.03
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTTATTTTTATTTAATTATAATATT
Found at i:27509436 original size:12 final size:12
Alignment explanation
Indices: 27509419--27509444 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27509409 TTATTTTTAA
27509419 TATAATCATTTT
1 TATAATCATTTT
27509431 TATAATCATTTT
1 TATAATCATTTT
27509443 TA
1 TA
27509445 AATTTGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (12 bp):
TATAATCATTTT
Found at i:27509540 original size:15 final size:15
Alignment explanation
Indices: 27509517--27509570 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
27509507 AAATCTTATC
*
27509517 ATTTT-AAATTATAA
1 ATTTTAAAATTCTAA
*
27509531 ATTTTAAAATGCTAA
1 ATTTTAAAATTCTAA
*
27509546 TATTTTAAAAATCTCAA
1 -ATTTTAAAATTCT-AA
27509563 ATTTTAAA
1 ATTTTAAA
27509571 TTTTTCATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 19 0.58
17 2 0.06
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (15 bp):
ATTTTAAAATTCTAA
Found at i:27514558 original size:17 final size:17
Alignment explanation
Indices: 27514536--27514570 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27514526 ATTATTTTAA
*
27514536 TAAATTCAATTTAATAT
1 TAAATTCAATCTAATAT
*
27514553 TAAATTTAATCTAATAT
1 TAAATTCAATCTAATAT
27514570 T
1 T
27514571 TATCTTGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAATTCAATCTAATAT
Found at i:27515800 original size:16 final size:16
Alignment explanation
Indices: 27515776--27515853 Score: 53
Period size: 16 Copynumber: 5.2 Consensus size: 16
27515766 AATACTAATC
27515776 TAATATAAATATTAAAA
1 TAAT-TAAATATTAAAA
27515793 TAATTAAA-A-TAAAA
1 TAATTAAATATTAAAA
*
27515807 -AATT--TTATT-AAA
1 TAATTAAATATTAAAA
* *
27515819 TAA-AAAATTTATAAAA
1 TAATTAAATAT-TAAAA
*
27515835 TTATTAAATATTAAAA
1 TAATTAAATATTAAAA
27515851 TAA
1 TAA
27515854 AATAATATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 17
0.64 0.11 0.24
Matches are distributed among these distances:
12 4 0.09
13 7 0.16
14 7 0.16
15 2 0.04
16 16 0.36
17 9 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TAATTAAATATTAAAA
Found at i:27521559 original size:243 final size:243
Alignment explanation
Indices: 27521001--27521655 Score: 1150
Period size: 243 Copynumber: 2.7 Consensus size: 243
27520991 TATGGTGGAT
27521001 GTTAATCCTTTAAAACTTTTGCTTTGATTCCTCTGCCTGCTAACTTTTATCATTGTAGCATATGC
1 GTTAATCCTTTAAAACTTTTGCTTTGATTCCTCTGCCTGCTAACTTTTATCATTGTAGCATATGC
27521066 TTTAATTTTTTCCTGTTCTCAAATTGAAAAGCCTGGTTTAAAATCTATACTTGTAATGTAAAGTT
66 TTTAATTTTTTCCTGTTCTCAAATTGAAAAGCCTGGTTTAAAATCTATACTTGTAATGTAAAGTT
* * *
27521131 GGTTCTTTGTTTCTTTTTGTTCAAATATGTCATAAGTCCTTTAAAACTTTATAGTTGTTTCCCTA
131 GGTTCTTAGTTTCTTTTTGTTCAAATATCTCATAAGTCCTTTAAAACTTTATAGTAGTTTCCCTA
27521196 ATTGTTCACTAAATTCTGAATTCCTTATGGTAAATGTTAATCCTTAAA
196 ATTGTTCACTAAATTCTGAATTCCTTATGGTAAATGTTAATCCTTAAA
* *
27521244 GTTAATCCTTTAAAACTTTTGCTTTGATTCCTCTGTCTGCTAACTTTTATCATTATAGCATATGC
1 GTTAATCCTTTAAAACTTTTGCTTTGATTCCTCTGCCTGCTAACTTTTATCATTGTAGCATATGC
*
27521309 TTTAATTTTTTCCTGTTCTCAAATTGAAAAGCCTGGTTTAAAATCTGTACTTGTAATGTAAAGTT
66 TTTAATTTTTTCCTGTTCTCAAATTGAAAAGCCTGGTTTAAAATCTATACTTGTAATGTAAAGTT
* * * *
27521374 GGTTCTTAGTTTCTTTTTGTTCAAATTTCTCTTACGTCCTTTTAACACTTTATAGTAGTTTCCCT
131 GGTTCTTAGTTTCTTTTTGTTCAAATATCTCATAAGTCC-TTTAAAACTTTATAGTAGTTTCCCT
*
27521439 AATTGTTCACTAAATTCTGAATTCCTTATGGTGAATGTTAATCCTTAAA
195 AATTGTTCACTAAATTCTGAATTCCTTATGGTAAATGTTAATCCTTAAA
* * * *
27521488 GTTAATCCTTTAAAACTTTTGATTTGATTCCTCTGCCGGCTAACTTTTATCATTGTAGCATTTAC
1 GTTAATCCTTTAAAACTTTTGCTTTGATTCCTCTGCCTGCTAACTTTTATCATTGTAGCATATGC
27521553 -TTAATTTTTTCCTGTTCTCAAATTGAAAAGCCTGGTTTAAAATCTATACTTGTAATGTAAAGTT
66 TTTAATTTTTTCCTGTTCTCAAATTGAAAAGCCTGGTTTAAAATCTATACTTGTAATGTAAAGTT
*
27521617 GGTTCTTAGTTTCTTTTTGTTCAAATATGTCATAAGTCC
131 GGTTCTTAGTTTCTTTTTGTTCAAATATCTCATAAGTCC
27521656 CTATACTCTT
Statistics
Matches: 389, Mismatches: 22, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
243 259 0.67
244 130 0.33
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.46
Consensus pattern (243 bp):
GTTAATCCTTTAAAACTTTTGCTTTGATTCCTCTGCCTGCTAACTTTTATCATTGTAGCATATGC
TTTAATTTTTTCCTGTTCTCAAATTGAAAAGCCTGGTTTAAAATCTATACTTGTAATGTAAAGTT
GGTTCTTAGTTTCTTTTTGTTCAAATATCTCATAAGTCCTTTAAAACTTTATAGTAGTTTCCCTA
ATTGTTCACTAAATTCTGAATTCCTTATGGTAAATGTTAATCCTTAAA
Found at i:27525880 original size:11 final size:11
Alignment explanation
Indices: 27525862--27525891 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
27525852 TTATTTGTGT
27525862 AGTTATTTTAA
1 AGTTATTTTAA
*
27525873 ATTTATTTTAA
1 AGTTATTTTAA
27525884 AGTTATTT
1 AGTTATTT
27525892 AGTTTGTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (11 bp):
AGTTATTTTAA
Found at i:27526194 original size:21 final size:21
Alignment explanation
Indices: 27526169--27526214 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
27526159 GTTTTTAATT
*
27526169 TAATTTAATTTTGTTAGTAAG
1 TAATTTAATTTTATTAGTAAG
*
27526190 TAATTTTATTTTATTAGTAAG
1 TAATTTAATTTTATTAGTAAG
27526211 TAAT
1 TAAT
27526215 ACAAATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (21 bp):
TAATTTAATTTTATTAGTAAG
Found at i:27526339 original size:20 final size:20
Alignment explanation
Indices: 27526316--27526367 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
27526306 TTAGGTTTTT
*
27526316 ATTAATTTTTTACTGAAATA
1 ATTAATTTTTTACCGAAATA
* *
27526336 ATT-ATTTATGTACCGAATTA
1 ATTAATTT-TTTACCGAAATA
27526356 ATTGAATTTTTT
1 ATT-AATTTTTT
27526368 TTTTAAATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
19 4 0.16
20 15 0.60
21 2 0.08
22 4 0.16
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.52
Consensus pattern (20 bp):
ATTAATTTTTTACCGAAATA
Found at i:27527468 original size:29 final size:28
Alignment explanation
Indices: 27527375--27527468 Score: 72
Period size: 29 Copynumber: 3.3 Consensus size: 28
27527365 TTTATACTCG
* *
27527375 GGGGTAAAATGGTAATTTTGGTTGAAATT
1 GGGGCAAAATGGTAATTTTGG-TGAAATC
*
27527404 GGGTCAAAAATTGG--ATTTT-G-GAAAGTTC
1 GGGGC-AAAA-TGGTAATTTTGGTGAAA--TC
27527432 GGGG-AAAATGGTAATTTTGGTGAAATC
1 GGGGCAAAATGGTAATTTTGGTGAAATC
27527459 GAGGGCAAAA
1 G-GGGCAAAA
27527469 ATTGAATTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 20
0.68 0.05 0.27
Matches are distributed among these distances:
25 3 0.06
26 8 0.16
27 8 0.16
28 9 0.18
29 16 0.31
30 4 0.08
31 3 0.06
ACGTcount: A:0.34, C:0.04, G:0.32, T:0.30
Consensus pattern (28 bp):
GGGGCAAAATGGTAATTTTGGTGAAATC
Found at i:27527468 original size:56 final size:57
Alignment explanation
Indices: 27527375--27527486 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 57
27527365 TTTATACTCG
* * * *
27527375 GGGGTAAAATGGTAATTTTGGTTGAAATTGGGTCAAAAATTGGATTTTGGAAAGTTC
1 GGGGTAAAATGGTAATTTTGGTTGAAATCGGGGCAAAAATTGAATTTTAGAAAGTTC
27527432 GGGG-AAAATGGTAATTTTGG-TGAAATCGAGGGCAAAAATTGAATTTTAGAAAGTT
1 GGGGTAAAATGGTAATTTTGGTTGAAATCG-GGGCAAAAATTGAATTTTAGAAAGTT
27527487 TTGGGGTCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
55 7 0.14
56 39 0.78
57 4 0.08
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (57 bp):
GGGGTAAAATGGTAATTTTGGTTGAAATCGGGGCAAAAATTGAATTTTAGAAAGTTC
Found at i:27527498 original size:29 final size:29
Alignment explanation
Indices: 27527473--27527671 Score: 143
Period size: 30 Copynumber: 6.7 Consensus size: 29
27527463 GCAAAAATTG
*
27527473 AATTTTAGAAAGTTTTGGGGTCAAAATAT
1 AATTTTAGAAAGTTTAGGGGTCAAAATAT
*
27527502 AATTTTAGAAAAGTTTAGGGGTTAAAATAT
1 AATTTTAG-AAAGTTTAGGGGTCAAAATAT
* * *
27527532 AATTTTCAAAAAGTTCCA-GGGTTAAAATAT
1 AATTTT-AGAAAGTT-TAGGGGTCAAAATAT
* ** *
27527562 AATTTTGGAAAAGTTTAAAGGTCAAAATGT
1 AATTTTAG-AAAGTTTAGGGGTCAAAATAT
* * *
27527592 AATTTACAAAAAGTTTTA-GGGT-TAAATAT
1 AATTT-TAGAAAG-TTTAGGGGTCAAAATAT
* * *
27527621 AATTTTGGAAAAGTTTAAGGGTCAAAATGT
1 AATTTTAG-AAAGTTTAGGGGTCAAAATAT
* * *
27527651 TATTTCTTGATAGTTTAGGGG
1 AATTT-TAGAAAGTTTAGGGG
27527672 CTTCTAAAGC
Statistics
Matches: 134, Mismatches: 25, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
28 4 0.03
29 27 0.20
30 95 0.71
31 8 0.06
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.37
Consensus pattern (29 bp):
AATTTTAGAAAGTTTAGGGGTCAAAATAT
Found at i:27527649 original size:59 final size:59
Alignment explanation
Indices: 27527481--27527655 Score: 233
Period size: 60 Copynumber: 2.9 Consensus size: 59
27527471 TGAATTTTAG
* * * * * * *
27527481 AAAGTTTTGGGGTCAAAATATAATTTTAGAAAAGTTTAGGGGTTAAAATATAATTTTCAA
1 AAAGTTTTAGGGT-TAAATATAATTTTGGAAAAGTTTAAGGGTCAAAATGTAATTTACAA
** *
27527541 AAAGTTCCAGGGTTAAAATATAATTTTGGAAAAGTTTAAAGGTCAAAATGTAATTTACAA
1 AAAGTTTTAGGGTT-AAATATAATTTTGGAAAAGTTTAAGGGTCAAAATGTAATTTACAA
*
27527601 AAAGTTTTAGGGTTAAATATAATTTTGGAAAAGTTTAAGGGTCAAAATGTTATTT
1 AAAGTTTTAGGGTTAAATATAATTTTGGAAAAGTTTAAGGGTCAAAATGTAATTT
27527656 CTTGATAGTT
Statistics
Matches: 100, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
59 39 0.39
60 61 0.61
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36
Consensus pattern (59 bp):
AAAGTTTTAGGGTTAAATATAATTTTGGAAAAGTTTAAGGGTCAAAATGTAATTTACAA
Found at i:27528583 original size:18 final size:19
Alignment explanation
Indices: 27528562--27528597 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
27528552 AATGAATTTA
*
27528562 CTATTATTA-TTATTAAAT
1 CTATTAATATTTATTAAAT
27528580 CTATTAATATTTATTAAA
1 CTATTAATATTTATTAAA
27528598 AATATTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (19 bp):
CTATTAATATTTATTAAAT
Found at i:27529448 original size:17 final size:18
Alignment explanation
Indices: 27529416--27529458 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
27529406 ATTCAAATTT
27529416 AATAAATTTAAATTTTAA
1 AATAAATTTAAATTTTAA
27529434 AATAAATTT-AATTTTAA
1 AATAAATTTAAATTTTAA
*
27529451 AACAAATT
1 AATAAATT
27529459 CAAAATGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
AATAAATTTAAATTTTAA
Found at i:27531846 original size:5 final size:5
Alignment explanation
Indices: 27531836--27531868 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
27531826 ACTACTAACA
27531836 AAATT AAATT AAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAATT AAA
27531869 AACAACGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AAATT
Found at i:27532008 original size:24 final size:24
Alignment explanation
Indices: 27531920--27532007 Score: 67
Period size: 24 Copynumber: 3.6 Consensus size: 24
27531910 CTAAATAAAA
* *
27531920 AAATTAATAATAAATCAAATAAAATC
1 AAATTAATAATAAA-CAAAT-AATTT
27531946 AAATTAA-ACA-AAACAAATAATTT
1 AAATTAATA-ATAAACAAATAATTT
*
27531969 ATAA-TAATTACTAAA-AAATAACTTT
1 A-AATTAA-TAATAAACAAATAA-TTT
27531994 AAATTAATAATAAA
1 AAATTAATAATAAA
27532008 ACATTTACAT
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
23 7 0.14
24 21 0.41
25 15 0.29
26 8 0.16
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.30
Consensus pattern (24 bp):
AAATTAATAATAAACAAATAATTT
Found at i:27541463 original size:20 final size:20
Alignment explanation
Indices: 27541434--27541471 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
27541424 TGTGGTGTTT
27541434 TAAAAATATTATTTTATTTA
1 TAAAAATATTATTTTATTTA
*
27541454 TAAAATTATTATTTTATT
1 TAAAAATATTATTTTATT
27541472 AAATAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TAAAAATATTATTTTATTTA
Found at i:27541480 original size:20 final size:20
Alignment explanation
Indices: 27541434--27541478 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
27541424 TGTGGTGTTT
* *
27541434 TAAAAATATTATTTTATTTA
1 TAAAATTATTATTTTATTAA
27541454 TAAAATTATTATTTTATTAAA
1 TAAAATTATTATTTTATT-AA
27541475 TAAA
1 TAAA
27541479 TTTCATGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TAAAATTATTATTTTATTAA
Found at i:27549739 original size:21 final size:22
Alignment explanation
Indices: 27549715--27549772 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
27549705 CTCTTAAATC
27549715 TTAAGA-GACCTAC-TTATATTT
1 TTAAGAGGA-CTACATTATATTT
*
27549736 TTAAGAGGATTACATTATATTT
1 TTAAGAGGACTACATTATATTT
*
27549758 TT--GAGGACTAAATTA
1 TTAAGAGGACTACATTA
27549773 AAAAACTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 11 0.34
21 9 0.28
22 12 0.38
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (22 bp):
TTAAGAGGACTACATTATATTT
Found at i:27549772 original size:20 final size:21
Alignment explanation
Indices: 27549728--27549772 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
27549718 AGAGACCTAC
* *
27549728 TTATATTTTTAAGAGGATTACA
1 TTATATTTTT-AGAGGACTAAA
27549750 TTATATTTTT-GAGGACTAAA
1 TTATATTTTTAGAGGACTAAA
27549770 TTA
1 TTA
27549773 AAAAACTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
22 10 0.48
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (21 bp):
TTATATTTTTAGAGGACTAAA
Found at i:27553930 original size:18 final size:17
Alignment explanation
Indices: 27553899--27553933 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
27553889 TTTTATTATT
*
27553899 TAAAAAATTATATATGA
1 TAAAAAATAATATATGA
27553916 TAAAAAATAATTATATGA
1 TAAAAAATAA-TATATGA
27553934 AATCACAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (17 bp):
TAAAAAATAATATATGA
Found at i:27558368 original size:15 final size:15
Alignment explanation
Indices: 27558347--27558395 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
27558337 ATAGTTCAAT
**
27558347 ATAAAATATTTTATT
1 ATAAAATATTTTAAA
* *
27558362 TTAAAATAATTTAAA
1 ATAAAATATTTTAAA
*
27558377 ATAAAATATTTTAAT
1 ATAAAATATTTTAAA
27558392 ATAA
1 ATAA
27558396 TTTAATATAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAAAATATTTTAAA
Found at i:27558376 original size:25 final size:25
Alignment explanation
Indices: 27558358--27558407 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
27558348 TAAAATATTT
27558358 TATTTTAAAATAATTTAAAATAAAA
1 TATTTTAAAATAATTTAAAATAAAA
* *
27558383 TATTTTAATATAATTTAATATAAAA
1 TATTTTAAAATAATTTAAAATAAAA
27558408 ATAATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TATTTTAAAATAATTTAAAATAAAA
Found at i:27558407 original size:30 final size:30
Alignment explanation
Indices: 27558314--27558407 Score: 83
Period size: 30 Copynumber: 3.3 Consensus size: 30
27558304 GGATTTAAAA
* *
27558314 AATATAAAAATAAAATA-TTTAATATAGTTC
1 AATAT-AAAATAAAATATTTTAATATAATTT
***
27558344 AATATAAAATATTTTATTTT-A-A-AA--T
1 AATATAAAATAAAATATTTTAATATAATTT
*
27558369 AATTTAAAATAAAATATTTTAATATAATTT
1 AATATAAAATAAAATATTTTAATATAATTT
27558399 AATATAAAA
1 AATATAAAA
27558408 ATAATTATAT
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
25 16 0.33
26 1 0.02
27 2 0.04
28 3 0.06
29 9 0.19
30 17 0.35
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (30 bp):
AATATAAAATAAAATATTTTAATATAATTT
Found at i:27558709 original size:16 final size:17
Alignment explanation
Indices: 27558672--27558710 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
27558662 ACTCTATGCT
* *
27558672 ATTACAGTTTTTTTTCC
1 ATTACAGTTCTATTTCC
27558689 ATTACAGTTCTATTT-C
1 ATTACAGTTCTATTTCC
27558705 ATTACA
1 ATTACA
27558711 ATCCTATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.26, C:0.18, G:0.05, T:0.51
Consensus pattern (17 bp):
ATTACAGTTCTATTTCC
Found at i:27558894 original size:21 final size:21
Alignment explanation
Indices: 27558876--27558917 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
27558866 CAATATTTTT
27558876 GTCAAAAGAACAACAATTTAA
1 GTCAAAAGAACAACAATTTAA
*
27558897 GTCAAAAGACCAACAATTTAA
1 GTCAAAAGAACAACAATTTAA
27558918 CTCTTTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.17, G:0.10, T:0.19
Consensus pattern (21 bp):
GTCAAAAGAACAACAATTTAA
Found at i:27558950 original size:40 final size:40
Alignment explanation
Indices: 27558895--27558975 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
27558885 ACAACAATTT
27558895 AAGTCAAAAGACCAACAATTTAACTCTTTTTGAAAGATTA
1 AAGTCAAAAGACCAACAATTTAACTCTTTTTGAAAGATTA
*
27558935 AAGTCAAAAGACCAACAATTTAACTTTTTTTGAAAGATTA
1 AAGTCAAAAGACCAACAATTTAACTCTTTTTGAAAGATTA
27558975 A
1 A
27558976 TGATTAAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.31
Consensus pattern (40 bp):
AAGTCAAAAGACCAACAATTTAACTCTTTTTGAAAGATTA
Found at i:27559110 original size:15 final size:16
Alignment explanation
Indices: 27559092--27559126 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
27559082 GTTTATATAT
27559092 ATAAATAAAATAATA-
1 ATAAATAAAATAATAC
27559107 ATAAATAAAATAATAC
1 ATAAATAAAATAATAC
27559123 ATAA
1 ATAA
27559127 TACATATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAATAAAATAATAC
Found at i:27559562 original size:15 final size:16
Alignment explanation
Indices: 27559544--27559584 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
27559534 ATTATATTAT
27559544 TTTAAT-ATTTAATAA
1 TTTAATAATTTAATAA
* *
27559559 TTTAATAATTT-TTTA
1 TTTAATAATTTAATAA
27559574 TTTAATAATTT
1 TTTAATAATTT
27559585 TTTATATAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAATAATTTAATAA
Found at i:27559584 original size:8 final size:8
Alignment explanation
Indices: 27559544--27559584 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
27559534 ATTATATTAT
27559544 TTTAAT-A
1 TTTAATAA
27559551 TTTAATAA
1 TTTAATAA
27559559 TTTAATAA
1 TTTAATAA
* *
27559567 TTT-TTTA
1 TTTAATAA
27559574 TTTAATAA
1 TTTAATAA
27559582 TTT
1 TTT
27559585 TTTATATAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
7 11 0.39
8 17 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTTAATAA
Found at i:27559585 original size:15 final size:15
Alignment explanation
Indices: 27559558--27559589 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
27559548 ATATTTAATA
27559558 ATTTAATAATTTTTT
1 ATTTAATAATTTTTT
27559573 ATTTAATAATTTTTT
1 ATTTAATAATTTTTT
27559588 AT
1 AT
27559590 ATAGTTATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTAATAATTTTTT
Found at i:27564848 original size:12 final size:12
Alignment explanation
Indices: 27564831--27564857 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
27564821 ACATAGAACT
27564831 CATTCTTCCTCC
1 CATTCTTCCTCC
27564843 CATTCTTCCTCC
1 CATTCTTCCTCC
27564855 CAT
1 CAT
27564858 GATTAGAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.11, C:0.48, G:0.00, T:0.41
Consensus pattern (12 bp):
CATTCTTCCTCC
Found at i:27569576 original size:14 final size:14
Alignment explanation
Indices: 27569553--27569587 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
27569543 AGATATTAGT
27569553 TAATAATAATAAAA
1 TAATAATAATAAAA
* *
27569567 TAATATTAATTAAA
1 TAATAATAATAAAA
27569581 TAATAAT
1 TAATAAT
27569588 TTATATTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TAATAATAATAAAA
Found at i:27573581 original size:23 final size:23
Alignment explanation
Indices: 27573549--27573592 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
27573539 ACTACCATTT
27573549 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
27573572 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
27573593 ATAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:27573585 original size:13 final size:11
Alignment explanation
Indices: 27573553--27573595 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
27573543 CCATTTTCTA
*
27573553 AATAAAATAAT
1 AATAAAATATT
27573564 AAT-AAATATCT
1 AATAAAATAT-T
27573575 AAGTAAAATATT
1 AA-TAAAATATT
27573587 AATAAAATA
1 AATAAAATA
27573596 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:27581144 original size:17 final size:17
Alignment explanation
Indices: 27581122--27581158 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
27581112 AGTTTAATTA
27581122 TAGGTATCGGTGGTTCT
1 TAGGTATCGGTGGTTCT
27581139 TAGGTATCGGTGGTTCT
1 TAGGTATCGGTGGTTCT
27581156 TAG
1 TAG
27581159 TACTGATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.14, C:0.11, G:0.35, T:0.41
Consensus pattern (17 bp):
TAGGTATCGGTGGTTCT
Found at i:27583637 original size:28 final size:29
Alignment explanation
Indices: 27583601--27583668 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 29
27583591 ATTAATGAAA
*
27583601 ATAAAATTATATTTTATATTTT-AAAATG
1 ATAAAATTATATTTAATATTTTAAAAATG
* * *
27583629 ATAAAATTAAATTTAATTTTTTAAAAATT
1 ATAAAATTATATTTAATATTTTAAAAATG
*
27583658 ATAAAAATATA
1 ATAAAATTATA
27583669 AATTATTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 19 0.58
29 14 0.42
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (29 bp):
ATAAAATTATATTTAATATTTTAAAAATG
Found at i:27583676 original size:29 final size:27
Alignment explanation
Indices: 27583601--27583676 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 27
27583591 ATTAATGAAA
* *
27583601 ATAAAATTATATTTTATATTTTAAAATG
1 ATAAAATTA-AATTTATTTTTTAAAATG
*
27583629 ATAAAATTAAATTTAATTTTTTAAAAATT
1 ATAAAATTAAATTT-ATTTTTT-AAAATG
27583658 ATAAAAATATAAA-TTATTT
1 AT-AAAAT-TAAATTTATTT
27583677 AAATAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 4 0.10
28 15 0.37
29 11 0.27
30 7 0.17
31 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (27 bp):
ATAAAATTAAATTTATTTTTTAAAATG
Found at i:27598547 original size:16 final size:16
Alignment explanation
Indices: 27598528--27598592 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 16
27598518 TTTTTAGTAA
27598528 TTTAATTTTTTTTTCT
1 TTTAATTTTTTTTTCT
*
27598544 TTTAACTTTCGTTTTT-T
1 TTTAA-TTT-TTTTTTCT
**
27598561 TTCCA-TTTTTTTTCT
1 TTTAATTTTTTTTTCT
*
27598576 TTTAATTTCTTTTTCT
1 TTTAATTTTTTTTTCT
27598592 T
1 T
27598593 CTTCACCCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
14 5 0.13
15 6 0.16
16 15 0.39
17 7 0.18
18 5 0.13
ACGTcount: A:0.11, C:0.12, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTAATTTTTTTTTCT
Found at i:27599947 original size:59 final size:60
Alignment explanation
Indices: 27599881--27600013 Score: 151
Period size: 60 Copynumber: 2.2 Consensus size: 60
27599871 AAAACTTTGA
* *
27599881 CAAGTACCAAATT-GAACAAAAAAAAGGTTAGGTACCAAATTATGAAAAAGAGTCAAGTT
1 CAAGTACCAAATTAGAACAAAAAAAAGGTTAAGTACCAAATTAAGAAAAAGAGTCAAGTT
* * *** * ** *
27599940 CAGGTACCAAATTAGACCCCCAAAAAGTTTAAGTACCAGGTTAAGAAAAAGTGTCAAGTT
1 CAAGTACCAAATTAGAACAAAAAAAAGGTTAAGTACCAAATTAAGAAAAAGAGTCAAGTT
*
27600000 TAAGTACCAAATTA
1 CAAGTACCAAATTA
27600014 AGAAAACGTG
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
59 12 0.20
60 48 0.80
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.22
Consensus pattern (60 bp):
CAAGTACCAAATTAGAACAAAAAAAAGGTTAAGTACCAAATTAAGAAAAAGAGTCAAGTT
Found at i:27599948 original size:31 final size:30
Alignment explanation
Indices: 27599908--27600099 Score: 142
Period size: 31 Copynumber: 6.4 Consensus size: 30
27599898 AAAAAAAAGG
27599908 TTAGGTACCAAATTATGAAAAAGAGTCAAGT
1 TTAGGTACCAAATTA-GAAAAAGAGTCAAGT
* ***** **
27599939 TCAGGTACCAAATTAGACCCCCA-AAAAGT
1 TTAGGTACCAAATTAGAAAAAGAGTCAAGT
* ** *
27599968 TTAAGTACCAGGTTAAGAAAAAGTGTCAAGT
1 TTAGGTACCAAATT-AGAAAAAGAGTCAAGT
* * *
27599999 TTAAGTACCAAATTAAGAAAACGTGTCAAGT
1 TTAGGTACCAAATT-AGAAAAAGAGTCAAGT
*
27600030 TTGGGTACCAAATTAGAGAAAA-A---AAGT
1 TTAGGTACCAAATTAGA-AAAAGAGTCAAGT
*
27600057 TTAGGTACCAAATTAGAAAAAGTGTCAAGT
1 TTAGGTACCAAATTAGAAAAAGAGTCAAGT
**
27600087 TCGGGTACCAAAT
1 TTAGGTACCAAAT
27600100 ATTATATTAA
Statistics
Matches: 123, Mismatches: 31, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
26 4 0.03
27 20 0.16
29 14 0.11
30 24 0.20
31 61 0.50
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (30 bp):
TTAGGTACCAAATTAGAAAAAGAGTCAAGT
Found at i:27599976 original size:60 final size:60
Alignment explanation
Indices: 27599901--27600013 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 60
27599891 ATTGAACAAA
* * *
27599901 AAAAAGGTTAGGTACCAAATTATGAAAAAGAGTCAAGTTCAGGTACCAAATTAGACCCCC
1 AAAAAGGTTAAGTACCAAATTAAGAAAAAGAGTCAAGTTCAAGTACCAAATTAGACCCCC
* ** * *
27599961 AAAAAGTTTAAGTACCAGGTTAAGAAAAAGTGTCAAGTTTAAGTACCAAATTA
1 AAAAAGGTTAAGTACCAAATTAAGAAAAAGAGTCAAGTTCAAGTACCAAATTA
27600014 AGAAAACGTG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (60 bp):
AAAAAGGTTAAGTACCAAATTAAGAAAAAGAGTCAAGTTCAAGTACCAAATTAGACCCCC
Found at i:27600064 original size:27 final size:26
Alignment explanation
Indices: 27600026--27600077 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
27600016 AAAACGTGTC
*
27600026 AAGTTTGGGTACCAAATTAGAGAAAAA
1 AAGTTTAGGTACCAAATTAGA-AAAAA
27600053 AAGTTTAGGTACCAAATTAGAAAAA
1 AAGTTTAGGTACCAAATTAGAAAAA
27600078 GTGTCAAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.50, C:0.08, G:0.19, T:0.23
Consensus pattern (26 bp):
AAGTTTAGGTACCAAATTAGAAAAAA
Found at i:27600750 original size:28 final size:28
Alignment explanation
Indices: 27600718--27600777 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
27600708 TTGTTCCTGG
27600718 TGTTTTAGTGTTATTAGTA-TATTGTTTT
1 TGTTTT-GTGTTATTAGTACTATTGTTTT
* ** *
27600746 TGTTTTGTTTTATTTTTACTGTTGTTTT
1 TGTTTTGTGTTATTAGTACTATTGTTTT
27600774 TGTT
1 TGTT
27600778 ATTTTTGCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.12, C:0.02, G:0.17, T:0.70
Consensus pattern (28 bp):
TGTTTTGTGTTATTAGTACTATTGTTTT
Found at i:27600781 original size:21 final size:21
Alignment explanation
Indices: 27600745--27600857 Score: 81
Period size: 21 Copynumber: 5.3 Consensus size: 21
27600735 TATATTGTTT
*
27600745 TTGTTTTGTTTTATTTTTACTG
1 TTGTTTT-TGTTATTTTTACTG
*
27600767 TTGTTTTTGTTATTTTTGCT-
1 TTGTTTTTGTTATTTTTACTG
*
27600787 TCTATTTTTCCAGTTATTTTTACT-
1 T-TGTTTTT---GTTATTTTTACTG
*
27600811 TT-TTTTTGTTATTTTTATTG
1 TTGTTTTTGTTATTTTTACTG
* * *
27600831 TTGTTATTATTATTATTT-TTG
1 TTGTTTTTGTTATT-TTTACTG
27600852 TTGTTT
1 TTGTTT
27600858 GGGTGTTGTT
Statistics
Matches: 76, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
19 11 0.14
20 3 0.04
21 34 0.45
22 15 0.20
23 1 0.01
24 12 0.16
ACGTcount: A:0.12, C:0.05, G:0.11, T:0.73
Consensus pattern (21 bp):
TTGTTTTTGTTATTTTTACTG
Found at i:27614359 original size:20 final size:20
Alignment explanation
Indices: 27614336--27614380 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
27614326 AAATAATTAA
27614336 TTTAATCATTAAATGATAT-G
1 TTTAATC-TTAAATGATATAG
* *
27614356 TTTAATCTTATATGGTATAG
1 TTTAATCTTAAATGATATAG
27614376 TTTAA
1 TTTAA
27614381 AGTGAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (20 bp):
TTTAATCTTAAATGATATAG
Found at i:27617606 original size:28 final size:29
Alignment explanation
Indices: 27617575--27617635 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
27617565 AAAATGCAAT
* * *
27617575 TTTTGGATACTT-ATGGGCAAAATGGTAA
1 TTTTGGACACTTCAGGGGCAAAATAGTAA
*
27617603 TTTTGGACACTTCAGGGGTAAAATAGTAA
1 TTTTGGACACTTCAGGGGCAAAATAGTAA
27617632 TTTT
1 TTTT
27617636 TGAAGGTTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (29 bp):
TTTTGGACACTTCAGGGGCAAAATAGTAA
Found at i:27617654 original size:29 final size:28
Alignment explanation
Indices: 27617622--27617812 Score: 83
Period size: 29 Copynumber: 6.6 Consensus size: 28
27617612 CTTCAGGGGT
*
27617622 AAAATAGTAATTTTTGAAGGTTCGAGGCC
1 AAAATAGGAATTTTTGAA-GTTCGAGGCC
**
27617651 AAAA-ATGGAATTTTTGGAAGTTCGAAGGTA
1 AAAATA-GGAATTTTT-GAAGTTCG-AGGCC
* * *
27617681 AAAATA-CAATTTTTGAGAAGTTCGGGGTC
1 AAAATAGGAATTTTT--GAAGTTCGAGGCC
* **
27617710 AAAA-ATGGAATTTTTAGAAGTT-TAGGGGT
1 AAAATA-GGAATTTTT-GAAGTTCGA-GGCC
27617739 AAAAT-GGTAATTTTTGGGAAGTTC-AGGGCC
1 AAAATAGG-AATTTTT--GAAGTTCGA-GGCC
* **
27617769 AAAA-AGGAATTTTTGAAAGTTTGAGGGT
1 AAAATAGGAATTTTTG-AAGTTCGAGGCC
27617797 AAAATAGTG-ATTTTTG
1 AAAATAG-GAATTTTTG
27617813 GAGAATTTAG
Statistics
Matches: 127, Mismatches: 18, Indels: 34
0.71 0.10 0.19
Matches are distributed among these distances:
27 1 0.01
28 15 0.12
29 68 0.54
30 42 0.33
31 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.32
Consensus pattern (28 bp):
AAAATAGGAATTTTTGAAGTTCGAGGCC
Found at i:27617656 original size:30 final size:29
Alignment explanation
Indices: 27617630--27617729 Score: 98
Period size: 29 Copynumber: 3.4 Consensus size: 29
27617620 GTAAAATAGT
27617630 AATTTTT-GAAGGTTCGAGGCCAAAAATGG
1 AATTTTTAGAAGGTTCGAGG-CAAAAATGG
* * **
27617659 AATTTTTGGAA-GTTCGAAGGTAAAAATAC
1 AATTTTTAGAAGGTTCG-AGGCAAAAATGG
*
27617688 AATTTTTGAGAA-GTTCGGGGTCAAAAATGG
1 AATTTTT-AGAAGGTTCGAGG-CAAAAATGG
27617718 AATTTTTAGAAG
1 AATTTTTAGAAG
27617730 TTTAGGGGTA
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
29 31 0.53
30 27 0.47
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (29 bp):
AATTTTTAGAAGGTTCGAGGCAAAAATGG
Found at i:27617685 original size:59 final size:58
Alignment explanation
Indices: 27617593--27617987 Score: 267
Period size: 59 Copynumber: 6.7 Consensus size: 58
27617583 ACTTATGGGC
* * *
27617593 AAAATGGTAA-TTTTGGACACTTCAGGGGTAAAATAGTAATTTTTGAAGGTTCGAGGCCA
1 AAAATGG-AATTTTTGGA-AGTTGAGGGGTAAAATAGTAATTTTTGAAGGTTCGAGGTCA
* * * *
27617652 AAAATGGAATTTTTGGAAGTTCGA-AGGTAAAAATA-CAATTTTTGAGAAGTTCGGGGTCA
1 AAAATGGAATTTTTGGAAGTT-GAGGGGT-AAAATAGTAATTTTTGA-AGGTTCGAGGTCA
* * * *
27617711 AAAATGGAATTTTTAGAAGTTTAGGGGTAAAATGGTAATTTTTGGGAA-GTTC-AGGGCCA
1 AAAATGGAATTTTTGGAAGTTGAGGGGTAAAATAGTAATTTTT--GAAGGTTCGA-GGTCA
* * * * * *
27617770 AAAA-GGAATTTTTGAAAGTTTGA-GGGTAAAATAGTGATTTTTGGAGAATT-TAGGGTTA
1 AAAATGGAATTTTTGGAAG-TTGAGGGGTAAAATAGTAATTTTTGAAG-GTTCGA-GGTCA
* * * *
27617828 AAAATAGAATTTTTGGAAATTTAGGGGTAAAA-ATGTAATTTTT-AGAGAATTCGAGGTCA
1 AAAATGGAATTTTTGGAAGTTGAGGGGTAAAATA-GTAATTTTTGA-AG-GTTCGAGGTCA
* * * * * *
27617887 AAAATGGAATTTTTGGAAATTTAGGGGTAAAA-ATGTAATTTTGGAAGTTTAGGGGT-A
1 AAAATGGAATTTTTGGAAGTTGAGGGGTAAAATA-GTAATTTTTGAAGGTTCGAGGTCA
* * * *
27617944 AAAATGTAATTTTTTGAAAGTTTAGGGGTTAAAAT-GTAAATTTT
1 AAAATGGAA-TTTTTGGAAGTTGAGGGG-TAAAATAGTAATTTTT
27617988 AGAAAGTTTG
Statistics
Matches: 273, Mismatches: 41, Indels: 45
0.76 0.11 0.13
Matches are distributed among these distances:
56 2 0.01
57 9 0.03
58 96 0.35
59 161 0.59
60 3 0.01
61 2 0.01
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (58 bp):
AAAATGGAATTTTTGGAAGTTGAGGGGTAAAATAGTAATTTTTGAAGGTTCGAGGTCA
Found at i:27617737 original size:117 final size:115
Alignment explanation
Indices: 27617616--27617987 Score: 375
Period size: 117 Copynumber: 3.2 Consensus size: 115
27617606 TGGACACTTC
*
27617616 AGGGGTAAAATAGTAATTTTTGAAGGTTCGAGGCCAAAAATGGAATTTTTGGAAGTTCGAAGGTA
1 AGGGGTAAAATAGTAATTTTTGAAGGTTCGAGGCCAAAAATGGAATTTTTGGAAGTT-GAGGGTA
* *
27617681 AAAATACAATTTTTGAGAAGTTCGGGGTCAAAAATGGAATTTTTAGAAGTTT
65 AAAATATAATTTTTGAGAAGTTAGGGGT-AAAAATGGAATTTTTAGAAGTTT
* *
27617733 AGGGGTAAAATGGTAATTTTTGGGAA-GTTC-AGGGCCAAAAA-GGAATTTTTGAAAGTTTGAGG
1 AGGGGTAAAATAGTAATTTTT--GAAGGTTCGA-GGCCAAAAATGGAATTTTTGGAAG-TTGAGG
* * * * * *
27617795 GT-AAAATAGTGATTTTTGGAGAATTTAGGGTTAAAAATAGAATTTTTGGAAATTT
62 GTAAAAATA-TAATTTTT-GAGAAGTTAGGGGTAAAAATGGAATTTTTAGAAGTTT
* * * *
27617850 AGGGGTAAAA-ATGTAATTTTT-AGAGAATTCGAGGTCAAAAATGGAATTTTTGGAAATTTAGGG
1 AGGGGTAAAATA-GTAATTTTTGA-AG-GTTCGAGGCCAAAAATGGAATTTTTGGAAGTTGA-GG
* * *
27617913 GTAAAAATGTAA-TTTTG-GAAGTTTAGGGGTAAAAATGTAATTTTTTGAAAGTTT
62 GTAAAAATATAATTTTTGAGAAG-TTAGGGGTAAAAATGGAATTTTTAG-AAGTTT
*
27617967 AGGGGTTAAAAT-GTAAATTTT
1 AGGGG-TAAAATAGTAATTTTT
27617988 AGAAAGTTTG
Statistics
Matches: 211, Mismatches: 26, Indels: 36
0.77 0.10 0.13
Matches are distributed among these distances:
114 1 0.00
115 4 0.02
116 28 0.13
117 120 0.57
118 50 0.24
119 8 0.04
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (115 bp):
AGGGGTAAAATAGTAATTTTTGAAGGTTCGAGGCCAAAAATGGAATTTTTGGAAGTTGAGGGTAA
AAATATAATTTTTGAGAAGTTAGGGGTAAAAATGGAATTTTTAGAAGTTT
Found at i:27617738 original size:30 final size:29
Alignment explanation
Indices: 27617651--27618008 Score: 243
Period size: 30 Copynumber: 12.2 Consensus size: 29
27617641 GTTCGAGGCC
* * *
27617651 AAAAATGGAATTTTTGGAAG-TTCGAAGGT
1 AAAAATGGAATTTTTAGAAGTTTAG-GGGT
** *
27617680 AAAAATACAATTTTTGAGAAG-TTCGGGGT
1 AAAAATGGAATTTTT-AGAAGTTTAGGGGT
27617709 CAAAAATGGAATTTTTAGAAGTTTAGGGGT
1 -AAAAATGGAATTTTTAGAAGTTTAGGGGT
* * **
27617739 -AAAATGGTAATTTTTGGGAAGTTCAGGGCC
1 AAAAATGG-AATTTTT-AGAAGTTTAGGGGT
27617769 AAAAA-GGAATTTTT-GAAAGTTT-GAGGGT
1 AAAAATGGAATTTTTAG-AAGTTTAG-GGGT
*
27617797 -AAAATAGTG-ATTTTTGGAGAA-TTTAGGGTT
1 AAAAAT-G-GAATTTTT--AGAAGTTTAGGGGT
* * *
27617827 AAAAATAGAATTTTTGGAAATTTAGGGGT
1 AAAAATGGAATTTTTAGAAGTTTAGGGGT
* * * *
27617856 AAAAATGTAATTTTTAG-AGAATTCGAGGT
1 AAAAATGGAATTTTTAGAAG-TTTAGGGGT
* *
27617885 CAAAAATGGAATTTTTGGAAATTTAGGGGT
1 -AAAAATGGAATTTTTAGAAGTTTAGGGGT
* *
27617915 AAAAATGTAA-TTTTGGAAGTTTAGGGGT
1 AAAAATGGAATTTTTAGAAGTTTAGGGGT
* *
27617943 AAAAATGTAATTTTTTGAAAGTTTAGGGGT
1 AAAAATGGAATTTTTAG-AAGTTTAGGGGT
* * * *
27617973 TAAAATGTAAATTTTAGAAAGTTTGAGGGTT
1 AAAAATGGAATTTTTAG-AAGTTT-AGGGGT
27618004 AAAAA
1 AAAAA
27618009 CATGATTTTT
Statistics
Matches: 266, Mismatches: 39, Indels: 46
0.76 0.11 0.13
Matches are distributed among these distances:
27 6 0.02
28 45 0.17
29 85 0.32
30 107 0.40
31 22 0.08
32 1 0.00
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.34
Consensus pattern (29 bp):
AAAAATGGAATTTTTAGAAGTTTAGGGGT
Found at i:27619187 original size:3 final size:3
Alignment explanation
Indices: 27619181--27619220 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
27619171 TTTTTTATTA
27619181 AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
27619221 ATGATGGTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:27619207 original size:17 final size:17
Alignment explanation
Indices: 27619185--27619219 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
27619175 TTATTAAATA
27619185 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
27619202 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
27619219 A
1 A
27619220 AATGATGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:27619207 original size:20 final size:20
Alignment explanation
Indices: 27619182--27619220 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
27619172 TTTTTATTAA
27619182 ATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAAT
27619202 ATAATAATAATAATAATAA
1 ATAATAATAATAATAATAA
27619221 ATGATGGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAATAATAATAATAATAAT
Found at i:27619900 original size:17 final size:17
Alignment explanation
Indices: 27619886--27619980 Score: 100
Period size: 17 Copynumber: 5.5 Consensus size: 17
27619876 TTTAAATTTT
27619886 ATTTCAAAATAAATTTAA
1 ATTT-AAAATAAATTTAA
27619904 ATTTAAAATAAATTTAA
1 ATTTAAAATAAATTTAA
* ** **
27619921 ACTCCAAATAAGCTTAA
1 ATTTAAAATAAATTTAA
*
27619938 ATTTACAATAAATTTAA
1 ATTTAAAATAAATTTAA
* * *
27619955 ACTTAAAATGAATTAAA
1 ATTTAAAATAAATTTAA
27619972 ATTTAAAAT
1 ATTTAAAAT
27619981 CTAAAATTGG
Statistics
Matches: 61, Mismatches: 16, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
17 57 0.93
18 4 0.07
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (17 bp):
ATTTAAAATAAATTTAA
Found at i:27620512 original size:48 final size:48
Alignment explanation
Indices: 27620436--27620556 Score: 156
Period size: 48 Copynumber: 2.5 Consensus size: 48
27620426 ATCTGGTTCA
*
27620436 CTTCTCTA-TATCTCATCAGGAATG-TAACCGCTTAATTGCTTCGACATG
1 CTTCTC-AGTATCTCATCAGGAA-GCTAACCACTTAATTGCTTCGACATG
* * * *
27620484 CTTCTCAGTATCTCATTAGGAAGCTAACCATTTTATTGCTTCGACTTG
1 CTTCTCAGTATCTCATCAGGAAGCTAACCACTTAATTGCTTCGACATG
*
27620532 CTTCTCGGTATCTCATCAGGAAGCT
1 CTTCTCAGTATCTCATCAGGAAGCT
27620557 GGGGTTCGAA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
47 2 0.03
48 62 0.97
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (48 bp):
CTTCTCAGTATCTCATCAGGAAGCTAACCACTTAATTGCTTCGACATG
Found at i:27620844 original size:209 final size:209
Alignment explanation
Indices: 27620484--27621418 Score: 1441
Period size: 209 Copynumber: 4.5 Consensus size: 209
27620474 CTTCGACATG
* * *
27620484 CTTCTCAGTATCTCATTAGGAAGCTAACCATTTTATTGCTTCGACTTGCTTCTCGGTATCTCATC
1 CTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
*
27620549 AGGAAGCTGGGGTTCGAAGATTTGCTTACTTTGAGCTTGGCTTTATTGATTTGGCCTTCTTCTCA
66 AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTTATTGATTTGGCCTTCTTCTCA
*
27620614 GTATCTTATCAAGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAG
131 GTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAG
* *
27620679 GCGAATTTGGTTCA
196 GCAAATTTGGTCCA
27620693 CTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
1 CTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* * * * *
27620758 AAGAAGCTGAGGTTCGAAGATTTGCTCACTTTGGGCTTAGCTTTATTGATTTGGCCTTTTTCTCA
66 AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTTATTGATTTGGCCTTCTTCTCA
* * *
27620823 GTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTTTCTGTATGTCATCAGGAAG
131 GTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAG
*
27620888 GCGAATTTGGTCCA
196 GCAAATTTGGTCCA
* * * *
27620902 CTTCTCAATATCTCATTAGGAAGCTAACCATTTTATTGCTTCAACCTGCTTCTCAATATCTCATC
1 CTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* * * *
27620967 AGGAAGCGGGGGTTCGAAGATTTGCTCAGTTTGAGCTTGGC----TTCA-TTGGTCTTCTTCTCA
66 AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTTATTGATTTGGCCTTCTTCTCA
* * * *
27621027 GTATCTCATCAGGAAGATAACCGCATCACTTGTTTCAATCTGCTCCTCTGTATCTCATCAGGAAG
131 GTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAG
27621092 GCAAATTTGGTCCA
196 GCAAATTTGGTCCA
*
27621106 CTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATC
1 CTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* * * *
27621171 AGGAAGCTGGAGTTCGAAGTTTTGCTCACTTTGAGCTTGGCTTCATTGATTTGGTCTTCTTCTCA
66 AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTTATTGATTTGGCCTTCTTCTCA
* *
27621236 GTATCTCATCAAGAAGATGACCACATCACTTGTTTCAATCCGCTTCTCTGTATCTCATTAGGAAG
131 GTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAG
* **
27621301 ACAAATTTGGTTAA
196 GCAAATTTGGTCCA
* * * *
27621315 CTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGGTTCGACCTACTTTTCAATATCTCATC
1 CTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
27621380 AGGAAGCTGGGGTTCGAAGATTTGCTCAC-TTGAAGCTTG
66 AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTG-AGCTTG
27621419 ATTTCATCAA
Statistics
Matches: 663, Mismatches: 57, Indels: 12
0.91 0.08 0.02
Matches are distributed among these distances:
204 183 0.28
205 3 0.00
208 6 0.01
209 471 0.71
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (209 bp):
CTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTTATTGATTTGGCCTTCTTCTCA
GTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAG
GCAAATTTGGTCCA
Found at i:27621256 original size:413 final size:415
Alignment explanation
Indices: 27620484--27621418 Score: 1455
Period size: 413 Copynumber: 2.3 Consensus size: 415
27620474 CTTCGACATG
* **
27620484 CTTCTCAGTATCTCATTAGGAAGCTAACCATTTTATTGCTTCGACTTGCTTCTCGGTATCTCATC
1 CTTCTCAGTATCTCATTAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
* *
27620549 AGGAAGCTGGGGTTCGAAGATTTGCTTACTTTGAGCTTGGCTTTATTGATTTGGCCTTCTTCTCA
66 AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGC--T-TTCATTTGGCCTTCTTCTCA
* * *
27620614 GTATCTTATCAAGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAG
128 GTATCTCATCAAGAAGATAACCGCATCACTTGTTTCAATCCGCTCCTCTGTATCTCATCAGGAAG
* * *
27620679 GCGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTT
193 GCAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTACTT
* *
27620744 CTCAGTATCTCATCAAGAAGCTGAGGTTCGAAGATTTGCTCACTTTGGGCTTAGCTTTATTGATT
258 CTCAGTATCTCATCAAGAAGCTGAGGTTCGAAGATTTGCTCACTTTGAGCTTAGCTTCATTGATT
* * * *
27620809 TGGCCTTTTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTTTCTGT
323 TGGCCTTCTTCTCAGTATCTCATCAAGAAGATGACCACATCACTTGTTTCAATCCGCTTCTCTGT
* * * *
27620874 ATGTCATCAGGAAGGCGAATTTGGTCCA
388 ATCTCATCAGGAAGACAAATTTGGTCAA
* *
27620902 CTTCTCAATATCTCATTAGGAAGCTAACCATTTTATTGCTTCAACCTGCTTCTCAATATCTCATC
1 CTTCTCAGTATCTCATTAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
* * *
27620967 AGGAAGCGGGGGTTCGAAGATTTGCTCAGTTTGAGCTTGGC-TTCA-TTGGTCTTCTTCTCAGTA
66 AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTTCATTTGGCCTTCTTCTCAGTA
* *
27621030 TCTCATCAGGAAGATAACCGCATCACTTGTTTCAATCTGCTCCTCTGTATCTCATCAGGAAGGCA
131 TCTCATCAAGAAGATAACCGCATCACTTGTTTCAATCCGCTCCTCTGTATCTCATCAGGAAGGCA
27621095 AATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTACTTCTC
196 AATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTACTTCTC
* * *
27621160 AGTATCTCATCAGGAAGCTG-GAGTTCGAAGTTTTGCTCACTTTGAGCTTGGCTTCATTGATTTG
261 AGTATCTCATCAAGAAGCTGAG-GTTCGAAGATTTGCTCACTTTGAGCTTAGCTTCATTGATTTG
*
27621224 GTCTTCTTCTCAGTATCTCATCAAGAAGATGACCACATCACTTGTTTCAATCCGCTTCTCTGTAT
325 GCCTTCTTCTCAGTATCTCATCAAGAAGATGACCACATCACTTGTTTCAATCCGCTTCTCTGTAT
* *
27621289 CTCATTAGGAAGACAAATTTGGTTAA
390 CTCATCAGGAAGACAAATTTGGTCAA
* * * *
27621315 CTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGGTTCGACCTACTTTTCAATATCTCATC
1 CTTCTCAGTATCTCATTAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
27621380 AGGAAGCTGGGGTTCGAAGATTTGCTCAC-TTGAAGCTTG
66 AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTG-AGCTTG
27621419 ATTTCATCAA
Statistics
Matches: 473, Mismatches: 42, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
412 4 0.01
413 368 0.78
414 3 0.01
418 98 0.21
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (415 bp):
CTTCTCAGTATCTCATTAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTTCATTTGGCCTTCTTCTCAGTA
TCTCATCAAGAAGATAACCGCATCACTTGTTTCAATCCGCTCCTCTGTATCTCATCAGGAAGGCA
AATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTACTTCTC
AGTATCTCATCAAGAAGCTGAGGTTCGAAGATTTGCTCACTTTGAGCTTAGCTTCATTGATTTGG
CCTTCTTCTCAGTATCTCATCAAGAAGATGACCACATCACTTGTTTCAATCCGCTTCTCTGTATC
TCATCAGGAAGACAAATTTGGTCAA
Found at i:27628407 original size:16 final size:16
Alignment explanation
Indices: 27628386--27628425 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
27628376 AAACATAATA
27628386 ATATCAACATACAAAT
1 ATATCAACATACAAAT
*
27628402 ATATCAACATACAAGT
1 ATATCAACATACAAAT
27628418 ATA-CAACA
1 ATATCAACA
27628426 AAGAACCTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.55, C:0.20, G:0.03, T:0.23
Consensus pattern (16 bp):
ATATCAACATACAAAT
Found at i:27630074 original size:29 final size:28
Alignment explanation
Indices: 27630024--27630084 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
27630014 AAAATGAAAT
* *
27630024 TTTTGGATACTCGAGGGCAAAACGGTAA
1 TTTTGGACACTCGAGGGCAAAACAGTAA
* * *
27630052 TTTTGGACACTTCGGGGGTAAAATAGTAA
1 TTTTGGACAC-TCGAGGGCAAAACAGTAA
27630081 TTTT
1 TTTT
27630085 TGAAGGTTCG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (28 bp):
TTTTGGACACTCGAGGGCAAAACAGTAA
Found at i:27630094 original size:29 final size:28
Alignment explanation
Indices: 27630048--27630414 Score: 112
Period size: 29 Copynumber: 12.5 Consensus size: 28
27630038 GGGCAAAACG
* * *
27630048 GTAATTTTGGACACTTCGGGGGTAAAATA
1 GTAATTTTTGAAAGTTC-GGGGTAAAATA
*
27630077 GTAATTTTTGAAGGTTCGGGGTCAAAA-A
1 GTAATTTTTGAAAGTTCGGGGT-AAAATA
* * *
27630105 TGGAATTTTTGAAAGTTCGAGGTAAAATG
1 -GTAATTTTTGAAAGTTCGGGGTAAAATA
* * *
27630134 GTAACTTTTAGGAAGTTCGAGGTCAAAA-A
1 GTAA-TTTTTGAAAGTTCGGGGT-AAAATA
* * *
27630163 TGGAATTTTTGAAAGTTTGAGGGTAAAATG
1 -GTAATTTTTGAAAGTTCG-GGGTAAAATA
* *
27630193 GTAATTTTCAGAGAA-TTCAGGGATAAAA-A
1 GTAATTTT-TGA-AAGTTC-GGGGTAAAATA
*
27630222 TGAAATTTTTGGAAA-TTCGAGGGTAAAA-A
1 -GTAATTTTT-GAAAGTTCG-GGGTAAAATA
* *
27630251 TCTAATTTTT--AAGTTCAGGGGCAAAAATA
1 -GTAATTTTTGAAAGTTC-GGGG-TAAAATA
** * *
27630280 -TAATTTTCAAAAAGTTTAAGGGTTAAAAT-
1 GTAATTTT-TGAAAG-TT-CGGGGTAAAATA
* *
27630309 GTAATTTTTAGAAAGTTTGATGGTCAAAA-A
1 GTAATTTTT-GAAAGTTCG-GGGT-AAAATA
* *
27630339 TGTAAATTTTGAAAAGTTTGGGGATCAAAAT-
1 -GTAATTTTTG-AAAGTTCGGGG-T-AAAATA
* * * *
27630370 TTAATTTTTAGAAAGTTTAGAGTTAAAAT-
1 GTAATTTTT-GAAAG-TTCGGGGTAAAATA
27630399 GTAATTTTTAGAAAGT
1 GTAATTTTT-GAAAGT
27630415 GTGGGGTCAA
Statistics
Matches: 258, Mismatches: 46, Indels: 69
0.69 0.12 0.18
Matches are distributed among these distances:
26 2 0.01
27 13 0.05
28 21 0.08
29 119 0.46
30 68 0.26
31 35 0.14
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (28 bp):
GTAATTTTTGAAAGTTCGGGGTAAAATA
Found at i:27630222 original size:59 final size:59
Alignment explanation
Indices: 27630062--27630249 Score: 212
Period size: 59 Copynumber: 3.2 Consensus size: 59
27630052 TTTTGGACAC
* * * *
27630062 TTCGGGGGTAAAATAGTAA-TTTT-TGAAGGTTCGGGGTCAAAAATGGAATTTTTGAAAG
1 TTCGAGGGTAAAATGGTAACTTTTAGGAA-GTTCGAGGTCAAAAATGGAATTTTTGAAAG
27630120 TTCGA-GGTAAAATGGTAACTTTTAGGAAGTTCGAGGTCAAAAATGGAATTTTTGAAAG
1 TTCGAGGGTAAAATGGTAACTTTTAGGAAGTTCGAGGTCAAAAATGGAATTTTTGAAAG
* *
27630178 TTTGAGGGTAAAATGGTAA-TTTTCAGAGAA-TTC-AGGGAT-AAAAATGAAATTTTTGGAAA-
1 TTCGAGGGTAAAATGGTAACTTTT-AG-GAAGTTCGA-GG-TCAAAAATGGAATTTTT-GAAAG
27630237 TTCGAGGGTAAAA
1 TTCGAGGGTAAAA
27630250 ATCTAATTTT
Statistics
Matches: 115, Mismatches: 7, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
57 12 0.10
58 46 0.40
59 49 0.43
60 8 0.07
ACGTcount: A:0.37, C:0.05, G:0.27, T:0.31
Consensus pattern (59 bp):
TTCGAGGGTAAAATGGTAACTTTTAGGAAGTTCGAGGTCAAAAATGGAATTTTTGAAAG
Found at i:27630428 original size:59 final size:61
Alignment explanation
Indices: 27630304--27630452 Score: 166
Period size: 59 Copynumber: 2.5 Consensus size: 61
27630294 TTTAAGGGTT
* *
27630304 AAAATGTAATTTTTAGAAAGTTT-GATGGTCAAAAATGTAAATTTTGAAAAGTTTGGGGATC
1 AAAATTTAATTTTTAGAAAGTTTAGA-GGTCAAAAATGTAAATTTTGAAAAGTGTGGGGATC
* *
27630365 AAAATTTAATTTTTAGAAAGTTTAGA-GT-TAAAATGT-AATTTTTAGAAAGTGTGGGG-TC
1 AAAATTTAATTTTTAGAAAGTTTAGAGGTCAAAAATGTAAATTTTGA-AAAGTGTGGGGATC
* * *
27630423 AAAAATGAGATTTTTAGACAGTTTAG-GGTC
1 AAAATTTA-ATTTTTAGAAAGTTTAGAGGTC
27630453 CTTTTGGGTA
Statistics
Matches: 76, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
58 15 0.20
59 35 0.46
60 2 0.03
61 22 0.29
62 2 0.03
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.37
Consensus pattern (61 bp):
AAAATTTAATTTTTAGAAAGTTTAGAGGTCAAAAATGTAAATTTTGAAAAGTGTGGGGATC
Found at i:27630452 original size:30 final size:30
Alignment explanation
Indices: 27630071--27630452 Score: 221
Period size: 30 Copynumber: 13.0 Consensus size: 30
27630061 CTTCGGGGGT
* **
27630071 AAAATAGTAATTTTT-GAAGGTTCGGGGTCA
1 AAAAT-GTAATTTTTAGAAAGTTTAGGGTCA
* *
27630101 AAAATGGAATTTTT-GAAAG-TTCGAGGT--
1 AAAATGTAATTTTTAGAAAGTTTAG-GGTCA
* * *
27630128 AAAATGGTAACTTTTAGGAAG-TTCGAGGTCA
1 AAAAT-GTAATTTTTAGAAAGTTTAG-GGTCA
*
27630159 AAAATGGAATTTTT-GAAAGTTTGAGGGT--
1 AAAATGTAATTTTTAGAAAGTTT-AGGGTCA
* *
27630187 AAAATGGTAATTTTCAGAGAA-TTCAGGGAT-A
1 AAAAT-GTAATTTTTAGA-AAGTTTAGGG-TCA
* * *
27630218 AAAATGAAATTTTTGGAAA-TTCGAGGGT-A
1 AAAATGTAATTTTTAGAAAGTT-TAGGGTCA
* * *
27630247 AAAATCTAATTTTT---AAGTTCAGGGGCA
1 AAAATGTAATTTTTAGAAAGTTTAGGGTCA
* * * *
27630274 AAAATATAATTTTCAAAAAGTTTAAGGGT-T
1 AAAATGTAATTTTTAGAAAGTTT-AGGGTCA
*
27630304 AAAATGTAATTTTTAGAAAGTTTGATGGTCA
1 AAAATGTAATTTTTAGAAAGTTT-AGGGTCA
* *
27630335 AAAATGTAAATTTT-GAAAAGTTTGGGGATC-
1 AAAATGTAATTTTTAG-AAAGTTTAGGG-TCA
* * *
27630365 AAAATTTAATTTTTAGAAAGTTTAGAGT-T
1 AAAATGTAATTTTTAGAAAGTTTAGGGTCA
* *
27630394 AAAATGTAATTTTTAGAAAGTGTGGGGTCA
1 AAAATGTAATTTTTAGAAAGTTTAGGGTCA
*
27630424 AAAATG-AGATTTTTAGACAGTTTAGGGTC
1 AAAATGTA-ATTTTTAGAAAGTTTAGGGTC
27630453 CTTTTGGGTA
Statistics
Matches: 278, Mismatches: 48, Indels: 52
0.74 0.13 0.14
Matches are distributed among these distances:
26 6 0.02
27 20 0.07
28 14 0.05
29 86 0.31
30 112 0.40
31 40 0.14
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (30 bp):
AAAATGTAATTTTTAGAAAGTTTAGGGTCA
Found at i:27631560 original size:6 final size:6
Alignment explanation
Indices: 27631549--27631607 Score: 59
Period size: 6 Copynumber: 10.0 Consensus size: 6
27631539 CAATTAAATT
** *
27631549 TTTAAA TTTAAA TTTTTA TTTCAAA -ATAAA TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA
*
27631597 -ATAAA TTTAAA
1 TTTAAA TTTAAA
27631608 CTCCAAATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
5 7 0.17
6 34 0.81
7 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:27631601 original size:23 final size:24
Alignment explanation
Indices: 27631551--27631607 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
27631541 ATTAAATTTT
**
27631551 TAAATTTAAATTTTTATTTCAAAA
1 TAAATTTAAATTTAAATTTCAAAA
27631575 TAAATTTAAATTTAAATTT-AAAA
1 TAAATTTAAATTTAAATTTCAAAA
27631598 TAAATTTAAA
1 TAAATTTAAA
27631608 CTCCAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 14 0.45
24 17 0.55
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
TAAATTTAAATTTAAATTTCAAAA
Found at i:27631603 original size:17 final size:17
Alignment explanation
Indices: 27631581--27631666 Score: 91
Period size: 17 Copynumber: 5.1 Consensus size: 17
27631571 AAAATAAATT
27631581 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* **
27631598 TAAATTTAAACTCCAAA
1 TAAATTTAAATTTAAAA
** *
27631615 TAAGCTTAAATTTACAA
1 TAAATTTAAATTTAAAA
*
27631632 TAAATTTAAACTTAAAA
1 TAAATTTAAATTTAAAA
* *
27631649 TGAATTAAAATTTAAAA
1 TAAATTTAAATTTAAAA
27631666 T
1 T
27631667 CTAAAATTGG
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 53 1.00
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:27633331 original size:3 final size:3
Alignment explanation
Indices: 27633323--27633357 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
27633313 GTTTATTTAT
27633323 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
27633358 TTGGATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:27634271 original size:98 final size:98
Alignment explanation
Indices: 27634169--27634788 Score: 778
Period size: 98 Copynumber: 6.3 Consensus size: 98
27634159 CGGTTCGCCA
* * * * ** * **
27634169 TTGCGACTTCAATCTTTCCCATAATGTTTCTGAGGTATTAGGTTCGCCGTTACGACTTAAATTTT
1 TTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTT
* *
27634234 TCCCTCCATATCTTTGTGGTACCAGATTCGTCG
66 TCCCTCCATATCTTCGTGGTACTAGATTCGTCG
** ** * * * * *
27634267 TTGCGGCTTCCATCTTTCCCAACATGTTGTTTTTGAGGTACCAGGTTCGTCGTTACGACTTAAAT
1 TTGCGGCTTAAATCTTTCCCTTCA---TGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAAC
* *
27634332 CTTTCCCTTCC-TATCTTCGTGGTACCAGATTCGTCA
63 CTTTCCC-TCCATATCTTCGTGGTACTAGATTCGTCG
* * * * *
27634368 TTGCGGCTTCAATCCTTCCCTTCATGTTTCTGAGGTATAAGGTTCGCCATTGCGACTTAAATCTT
1 TTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTT
27634433 TCCCTCCATATCTTCGTGGTACTAGATTCGTCG
66 TCCCTCCATATCTTCGTGGTACTAGATTCGTCG
* * * * *
27634466 TTGTGGCTTAAATCTTTCTCTTCATGTTTTTGAGGTACAAGGTTCGCTGTTGTGACTTAAACCTT
1 TTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTT
* *
27634531 TCCCTCCATATCTTCGTGATACTAGATTCGCCG
66 TCCCTCCATATCTTCGTGGTACTAGATTCGTCG
*
27634564 TTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCTTTGCGACTTAAACCTT
1 TTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTT
*
27634629 TCCTTCCATATCATT-GTGGTACTAGATTCG-CTG
66 TCCCTCCATATC-TTCGTGGTACTAGATTCGTC-G
* * * * *
27634662 TTGCGACTTAAATCTTTCCCTTCATGTTTCTAAGGTACAAGGTTCACCATTGTGACTTAAACCTT
1 TTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTT
*
27634727 TCCCTCCACATCTTCGTGGTACTAGATTCGTCG
66 TCCCTCCATATCTTCGTGGTACTAGATTCGTCG
*
27634760 TTGCGGCTTAAATATTTCCCTTCATGTTT
1 TTGCGGCTTAAATCTTTCCCTTCATGTTT
27634789 TCGTGGTAAT
Statistics
Matches: 461, Mismatches: 52, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
97 6 0.01
98 366 0.79
99 3 0.01
101 83 0.18
102 3 0.01
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (98 bp):
TTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTT
TCCCTCCATATCTTCGTGGTACTAGATTCGTCG
Found at i:27634792 original size:49 final size:49
Alignment explanation
Indices: 27634118--27634796 Score: 392
Period size: 49 Copynumber: 13.8 Consensus size: 49
27634108 GAAGATTCAC
* * * * * ** * * *
27634118 CGTTTCGACTTTAATCTTTTCCTTCAAATCTTAATGGTACTCGGTTCGC
1 CGTTGCGACTTAAATCTTTCCCTTCATATTTTCGTGGTACTAGATTCGT
* * * * * * *
27634167 CATTGCGACTTCAATCTTTCCCAT-A-ATGTTTCTGAGGTATTAGGTTCGC
1 CGTTGCGACTTAAATCTTTCCCTTCATAT-TTTC-GTGGTACTAGATTCGT
* * * *
27634216 CGTTACGACTTAAATTTTTCCCTCCATATCTTT-GTGGTACCAGATTCGT
1 CGTTGCGACTTAAATCTTTCCCTTCATAT-TTTCGTGGTACTAGATTCGT
* ** ** * * * * *
27634265 CGTTGCGGCTTCCATCTTTCCCAACATGTTGTTTTTGAGGTACCAGGTTCGT
1 CGTTGCGACTTAAATCTTTCCCTTCA---TATTTTCGTGGTACTAGATTCGT
* * * *
27634317 CGTTACGACTTAAATCTTTCCCTTCCTATCTTCGTGGTACCAGATTCGT
1 CGTTGCGACTTAAATCTTTCCCTTCATATTTTCGTGGTACTAGATTCGT
* * * * * * * *
27634366 CATTGCGGCTTCAATCCTTCCCTTCAT-GTTTCTGAGGTA-TAAGGTTCGC
1 CGTTGCGACTTAAATCTTTCCCTTCATATTTTC-GTGGTACT-AGATTCGT
* * *
27634415 CATTGCGACTTAAATCTTTCCCTCCATATCTTCGTGGTACTAGATTCGT
1 CGTTGCGACTTAAATCTTTCCCTTCATATTTTCGTGGTACTAGATTCGT
* * * * * * * *
27634464 CGTTGTGGCTTAAATCTTTCTCTTCATGTTTTTGAGGTACAAGGTTCG-
1 CGTTGCGACTTAAATCTTTCCCTTCATATTTTCGTGGTACTAGATTCGT
* * * * * *
27634512 CTGTTGTGACTTAAACCTTTCCCTCCATATCTTCGTGATACTAGATTCGC
1 C-GTTGCGACTTAAATCTTTCCCTTCATATTTTCGTGGTACTAGATTCGT
* * * * * *
27634562 CGTTGCGGCTTAAATCTTTCCCTTCAT-GTTTCTGAGGTACAAGGTTCGC
1 CGTTGCGACTTAAATCTTTCCCTTCATATTTTC-GTGGTACTAGATTCGT
* * *
27634611 CTTTGCGACTTAAACCTTT-CCTTCCATATCATT-GTGGTACTAGATTCG-
1 CGTTGCGACTTAAATCTTTCCCTT-CATAT-TTTCGTGGTACTAGATTCGT
* * * **
27634659 CTGTTGCGACTTAAATCTTTCCCTTCAT-GTTTC-TAAGGTACAAGGTTCAC
1 C-GTTGCGACTTAAATCTTTCCCTTCATATTTTCGT--GGTACTAGATTCGT
* * * * * *
27634709 CATTGTGACTTAAACCTTTCCCTCCACATCTTCGTGGTACTAGATTCGT
1 CGTTGCGACTTAAATCTTTCCCTTCATATTTTCGTGGTACTAGATTCGT
* * *
27634758 CGTTGCGGCTTAAATATTTCCCTTCATGTTTTCGTGGTA
1 CGTTGCGACTTAAATCTTTCCCTTCATATTTTCGTGGTA
27634797 ATGAAACCTG
Statistics
Matches: 471, Mismatches: 133, Indels: 52
0.72 0.20 0.08
Matches are distributed among these distances:
47 5 0.01
48 15 0.03
49 391 0.83
50 14 0.03
51 11 0.02
52 35 0.07
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (49 bp):
CGTTGCGACTTAAATCTTTCCCTTCATATTTTCGTGGTACTAGATTCGT
Found at i:27635734 original size:17 final size:17
Alignment explanation
Indices: 27635701--27635749 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
27635691 GACCTCTCCT
*
27635701 TTTTCTTTTTCTTTTTCC
1 TTTTCTTCTT-TTTTTCC
*
27635719 TTTTCTTCTTTTTTTCT
1 TTTTCTTCTTTTTTTCC
*
27635736 TTTTTTTCTTTTTT
1 TTTTCTTCTTTTTT
27635750 GGTGAAATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 19 0.68
18 9 0.32
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTCTTCTTTTTTTCC
Found at i:27635735 original size:8 final size:8
Alignment explanation
Indices: 27635706--27635749 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
27635696 CTCCTTTTTC
27635706 TTTTTC-T
1 TTTTTCTT
*
27635713 TTTTCCTT
1 TTTTTCTT
*
27635721 TTCTTCTT
1 TTTTTCTT
27635729 TTTTTCTTT
1 TTTTTC-TT
27635738 TTTTTCTT
1 TTTTTCTT
27635746 TTTT
1 TTTT
27635750 GGTGAAATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
7 5 0.16
8 18 0.58
9 8 0.26
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:27635748 original size:6 final size:6
Alignment explanation
Indices: 27635699--27635739 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
27635689 TCGACCTCTC
* *
27635699 CTTTTT CTTTTT CTTTTT CCTTTT CTTCTT -TTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
27635740 TTTCTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:27644095 original size:28 final size:26
Alignment explanation
Indices: 27644064--27644121 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
27644054 TCCACATAAA
27644064 AATAATATACATCTTATAAAAATATTAT
1 AATAATATACAT-TTATAAAAA-ATTAT
**
27644092 AAT-ATATTTATTTATAAAAAATTAT
1 AATAATATACATTTATAAAAAATTAT
*
27644117 GATAA
1 AATAA
27644122 GAAAATATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 7 0.27
26 10 0.38
27 6 0.23
28 3 0.12
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (26 bp):
AATAATATACATTTATAAAAAATTAT
Found at i:27647765 original size:24 final size:26
Alignment explanation
Indices: 27647738--27647800 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 26
27647728 ATATTTATTT
27647738 TAATATTTAAAAATA-TTAAA-AAAA
1 TAATATTTAAAAATATTTAAATAAAA
* *
27647762 TAATA-TTAAAAAAATTTAAATATAA
1 TAATATTTAAAAATATTTAAATAAAA
*
27647787 -AATATTTATAAATA
1 TAATATTTAAAAATA
27647801 AACTACAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
23 8 0.25
24 14 0.44
25 10 0.31
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
TAATATTTAAAAATATTTAAATAAAA
Found at i:27647768 original size:14 final size:14
Alignment explanation
Indices: 27647749--27647776 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27647739 AATATTTAAA
27647749 AATATTAAAAAAAT
1 AATATTAAAAAAAT
27647763 AATATTAAAAAAAT
1 AATATTAAAAAAAT
27647777 TTAAATATAA
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AATATTAAAAAAAT
Found at i:27651061 original size:68 final size:68
Alignment explanation
Indices: 27650983--27651118 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
27650973 AAATGATGAA
27650983 AATTTGTATTCATAAAGCACAAATTGGAGCATATATAGAGAGAAAAAAAAGATAACAAATGTCCT
1 AATTTGTATTCATAAAGCACAAATTGGAGCATATATAGAGAGAAAAAAAAGATAACAAATGTCCT
27651048 ATC
66 ATC
27651051 AATTTGTATTCATAAAGCACAAATTGGAGCATATATAGAGAGAAAAAAAAGATAACAAATGTCCT
1 AATTTGTATTCATAAAGCACAAATTGGAGCATATATAGAGAGAAAAAAAAGATAACAAATGTCCT
27651116 ATC
66 ATC
27651119 TATCCAAGAG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.25
Consensus pattern (68 bp):
AATTTGTATTCATAAAGCACAAATTGGAGCATATATAGAGAGAAAAAAAAGATAACAAATGTCCT
ATC
Found at i:27654042 original size:23 final size:23
Alignment explanation
Indices: 27654016--27654061 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
27654006 GTCTCCCCCA
27654016 CCATTGTCCGTCTCTTTGGGCTT
1 CCATTGTCCGTCTCTTTGGGCTT
27654039 CCATTGTCCGTCTCTTTGGGCTT
1 CCATTGTCCGTCTCTTTGGGCTT
27654062 GGAAGACTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.04, C:0.30, G:0.22, T:0.43
Consensus pattern (23 bp):
CCATTGTCCGTCTCTTTGGGCTT
Found at i:27662097 original size:21 final size:20
Alignment explanation
Indices: 27662072--27662119 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
27662062 AGCATATAAT
27662072 TATATTTTAAAGAGTAAAATA
1 TATATTTTAAA-AGTAAAATA
* *
27662093 TATATCTTAAAATTAAAATA
1 TATATTTTAAAAGTAAAATA
27662113 T-TATTTT
1 TATATTTT
27662120 GTAAAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 5 0.21
20 9 0.38
21 10 0.42
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (20 bp):
TATATTTTAAAAGTAAAATA
Found at i:27663399 original size:28 final size:27
Alignment explanation
Indices: 27663318--27663414 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 27
27663308 TTAGGAAATG
* *
27663318 AAAGCCTTTGCGGCAAATCATGAAATA
1 AAAGCCTTTGTGGCAAATCATGAAAGA
* ** *
27663345 AAAGTCTTTGTGGTGAATGATGAAAGA
1 AAAGCCTTTGTGGCAAATCATGAAAGA
* *
27663372 AAAACCTTTGTGGCAAATTATGAAAAGA
1 AAAGCCTTTGTGGCAAATCATG-AAAGA
* *
27663400 ATAGCATTTGTGGCA
1 AAAGCCTTTGTGGCA
27663415 TACTCTAAAT
Statistics
Matches: 55, Mismatches: 14, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
27 38 0.69
28 17 0.31
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (27 bp):
AAAGCCTTTGTGGCAAATCATGAAAGA
Done.