Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 29 of 161
Found at i:9061473 original size:44 final size:44
Alignment explanation
Indices: 9061425--9061809 Score: 171
Period size: 44 Copynumber: 8.6 Consensus size: 44
9061415 AGCCACAAAC
*
9061425 CTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAATATGCAAGT
* * ** ** *
9061469 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAAT-TTTAGGT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAG---GTTGAATATGCAAGT
* * ** * *
9061515 CTTATCTCCTTG-AGATTACAGTGGAGTAGACCGAAGAAT-TTCAATT
1 CTTATCTCCCTGAAG-TTACAGTGGAGCAG---GTTGAATATGCAAGT
* * *
9061561 CTTATCTCCTTGAGGTTACAGTGGAGCAGATTG-A-A-GCTAGAGAT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAATATGC-A-AG-T
* * * * **** **
9061605 CTTATCTTCCTG-AGATTACAGAGGAGCAGATCGAAGCCACAAAC
1 CTTATCTCCCTGAAG-TTACAGTGGAGCAGGTTGAATATGCAAGT
* *
9061649 CTTATCTCCCTGAAGTTACAGTGGGGCTGGTTGAATATGCAAGT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAATATGCAAGT
* * ** * *
9061693 CTTATCTCCCTGAGGTTACAGTGGAG-TGGACCGAAGAATTTC-AGAT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGG-TTGAA-TA-TGCAAG-T
* * * *
9061739 CTTATCTCCCTGAGGTTACAGTGGAGCAGATTGGAGCTA-GTAA-T
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTT-GA-ATATGCAAGT
* *
9061783 CCTATCTTCCTGAAGTTACAGTGGAGC
1 CTTATCTCCCTGAAGTTACAGTGGAGC
9061810 GGATTAAAAT
Statistics
Matches: 261, Mismatches: 58, Indels: 44
0.72 0.16 0.12
Matches are distributed among these distances:
41 1 0.00
42 2 0.01
43 6 0.02
44 134 0.51
45 8 0.03
46 99 0.38
47 11 0.04
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAATATGCAAGT
Found at i:9061504 original size:88 final size:87
Alignment explanation
Indices: 9061291--9061505 Score: 236
Period size: 88 Copynumber: 2.5 Consensus size: 87
9061281 NNNNNNCAGA
* * * * *
9061291 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTAT
1 GATCTTATCTCCCTGAGGTTACAGAGGAGCAGATCGAAGACACAAACCTATCTCCCTGAAGTTAC
9061356 AGTGGAGCAGATTAAAATAAAG
66 AGTGGAGCAGATTAAAATAAAG
* * * * *
9061378 GATCCTATCTCTCTGAAGTTACAGAAGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAGGTTACAGAGGAGCAGATCGAAGACACAAACC-TATCTCCCTGAAGTTA
* * * *
9061443 CAGTGGGGCAGGTTGAATATGCAA-
65 CAGTGGAGCAGATT-AAAAT-AAAG
* * *
9061467 G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA
1 GATCTTATCTCCCTGAGGTTACAGAGGAGCAGATCGAAGA
9061506 ATTTTAGGTC
Statistics
Matches: 103, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
87 39 0.38
88 57 0.55
89 5 0.05
90 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (87 bp):
GATCTTATCTCCCTGAGGTTACAGAGGAGCAGATCGAAGACACAAACCTATCTCCCTGAAGTTAC
AGTGGAGCAGATTAAAATAAAG
Found at i:9061534 original size:46 final size:46
Alignment explanation
Indices: 9061464--9061764 Score: 223
Period size: 46 Copynumber: 6.7 Consensus size: 46
9061454 GTTGAATATG
*
9061464 CAAGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTT
1 CAAGTCTTATCTCCTTGAGGTTACAGTGGAGTAGACCGAAGAATTT
* * *
9061510 TAGGTCTTATCTCCTTGAGATTACAGTGGAGTAGACCGAAGAATTT
1 CAAGTCTTATCTCCTTGAGGTTACAGTGGAGTAGACCGAAGAATTT
* * ** *
9061556 CAATTCTTATCTCCTTGAGGTTACAGTGGAGCAGATTGAAG---CT
1 CAAGTCTTATCTCCTTGAGGTTACAGTGGAGTAGACCGAAGAATTT
* * * * *
9061599 -AGAGATCTTATCTTCC-TGAGATTACAGAGGAGCAGATCGAAGCCA---
1 CA-AG-TCTTATC-TCCTTGAGGTTACAGTGGAGTAGACCGAAG-AATTT
** * * * ** *
9061644 CAAACCTTATCTCCCTGAAGTTACAGTGG-G--G-CTGGTTGAATATG
1 CAAGTCTTATCTCCTTGAGGTTACAGTGGAGTAGAC-CGAAGAAT-TT
* *
9061688 CAAGTCTTATCTCCCTGAGGTTACAGTGGAGTGGACCGAAGAATTT
1 CAAGTCTTATCTCCTTGAGGTTACAGTGGAGTAGACCGAAGAATTT
*
9061734 C-AGATCTTATCTCCCTGAGGTTACAGTGGAG
1 CAAG-TCTTATCTCCTTGAGGTTACAGTGGAG
9061765 CAGATTGGAG
Statistics
Matches: 204, Mismatches: 33, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
40 1 0.00
41 3 0.01
42 1 0.00
43 6 0.03
44 73 0.36
45 7 0.03
46 106 0.52
47 6 0.03
48 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (46 bp):
CAAGTCTTATCTCCTTGAGGTTACAGTGGAGTAGACCGAAGAATTT
Found at i:9061728 original size:88 final size:87
Alignment explanation
Indices: 9061469--9061942 Score: 275
Period size: 88 Copynumber: 5.3 Consensus size: 87
9061459 ATATGCAAGT
* * ** * *
9061469 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTTAG-GTCTTATCTCCTTGAGATTA
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAG----CTAGAGTCTTATCTCCCTGAGATTA
**
9061533 CAGTGGAGTAGACCGAAGAATTTCAATT
62 CAGTGGAGTAGACCGAAGAA--TCAAAC
* * *
9061561 CTTATCTCCTTGAGGTTACAGTGGAGCAGATTGAAGCTAGAGATCTTATCTTCCTGAGATTACAG
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCTAGAG-TCTTATCTCCCTGAGATTACAG
* * * *
9061626 AGGAGCAGATCGAAGCCA-CAAAC
65 TGGAGTAGACCGAAG-AATCAAAC
* * * *
9061649 CTTATCTCCCTGAAGTTACAGTGGGGCTGGTTGAA--TATGCAAGTCTTATCTCCCTGAGGTTAC
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCTA-G--AGTCTTATCTCCCTGAGATTAC
* * *
9061712 AGTGGAGTGGACCGAAGAATTTCAGAT
63 AGTGGAGTAGACCGAAGAA--TCAAAC
* * * * *
9061739 CTTATCTCCCTGAGGTTACAGTGGAGCAGATTGGAGCTAGTAATCCTATCTTCCTGA-AGTTACA
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCTAG-AGTCTTATCTCCCTGAGA-TTACA
** ** * *
9061803 GTGGAGCGGA-TTAA-AATAAAGGAT
64 GTGGAGTAGACCGAAGAATCAA--AC
* * * * * * * *
9061827 CTCATCTCTCTGAAGTTACAGTAGAGTAGATCGCAA-C-A-AATCTTATCTCCCTAAGGTTACAG
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTG-AAGCTAGAGTCTTATCTCCCTGAGATTACAG
* * ***
9061889 TGGAGTAAACCAAAGAATTTCAGGT
65 TGGAGTAGACCGAAGAA--TCAAAC
*
9061914 CTTATCTCCCTGAGGTTACAGTGGAGCAG
1 CTTATCTCCCTGAAGTTACAGTGGAGCAG
9061943 GTCGAAGATG
Statistics
Matches: 296, Mismatches: 66, Indels: 45
0.73 0.16 0.11
Matches are distributed among these distances:
85 25 0.08
86 6 0.02
87 30 0.10
88 99 0.33
89 8 0.03
90 92 0.31
91 2 0.01
92 34 0.11
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (87 bp):
CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCTAGAGTCTTATCTCCCTGAGATTACAGT
GGAGTAGACCGAAGAATCAAAC
Found at i:9061729 original size:224 final size:221
Alignment explanation
Indices: 9061290--9061891 Score: 774
Period size: 224 Copynumber: 2.7 Consensus size: 221
9061280 NNNNNNNCAG
* * *
9061290 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGACAATATCCTATCTCCCTGAAGTTA
*
9061355 TAGTGGAGCAGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGAAGAGCAGATCGAAGCCA
66 CAGTGGAGCAGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGAAGAGCAGATCGAAGCCA
9061420 CAAACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGT
131 CAAACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGT
*
9061485 TACAGTGGAGTAGACCGAAGAATTTT
196 TACAGTGGAGTAGACCGAAGAATTTC
* * * * * *
9061511 AGGTCTTATCTCCTTGAGATTACAGTGGAGTAGACCGAAGAATTTCAAT-TCTTATCTCCTTGAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAG-A---CAATATCCTATCTCCCTGAA
** * * *
9061575 GTTACAGTGGAGCAGATTGAAGCTAGA-GATCTTATCT-TCCTG-AGATTACAGAGGAGCAGATC
62 GTTACAGTGGAGCAGATT-AAAATAAAGGATCCTATCTCT-CTGAAG-TTACAGAAGAGCAGATC
*
9061637 GAAGCCACAAACCTTATCTCCCTGAAGTTACAGTGGGGCTGGTTGAATATGCAAGTCTTATCTCC
124 GAAGCCACAAACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCC
*
9061702 CTGAGGTTACAGTGGAGTGGACCGAAGAATTTC
189 CTGAGGTTACAGTGGAGTAGACCGAAGAATTTC
* ** * * *
9061735 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGGAG-CTAGTAATCCTATCTTCCTGAAGT
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAC-AAT-ATCCTATCTCCCTGAAGT
* * *
9061799 TACAGTGGAGCGGATTAAAATAAAGGAT-CTCATCTCTCTGAAGTTACAGTAGAGTAGATC---G
64 TACAGTGGAGCAGATTAAAATAAAGGATCCT-ATCTCTCTGAAGTTACAGAAGAGCAGATCGAAG
* *
9061860 CAACAAATCTTATCTCCCT-AAGGTTACAGTGG
128 CCACAAACCTTATCTCCCTGAA-GTTACAGTGG
9061892 AGTAAACCAA
Statistics
Matches: 326, Mismatches: 40, Indels: 32
0.82 0.10 0.08
Matches are distributed among these distances:
218 2 0.01
219 29 0.09
220 2 0.01
221 41 0.13
222 53 0.16
223 6 0.02
224 185 0.57
225 8 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (221 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGACAATATCCTATCTCCCTGAAGTTA
CAGTGGAGCAGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGAAGAGCAGATCGAAGCCA
CAAACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGT
TACAGTGGAGTAGACCGAAGAATTTC
Found at i:9061744 original size:178 final size:174
Alignment explanation
Indices: 9061513--9061965 Score: 511
Period size: 178 Copynumber: 2.6 Consensus size: 174
9061503 AGAATTTTAG
* * *
9061513 GTCTTATCTCCTTGAGATTACAGTGGAGTAGACCGAAGAATTTCA-ATTCTTATCTCCTTGAGGT
1 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA-TCTTATCTCCCTGAGGT
*
9061577 TACAGTGGAGCAGATTGAAGCTAG-AGATCTTATCTTCCTG-AGATTACAGAGGAGCAGATCGAA
65 TACAGTGGAGCAGATTGAAGCTAGTA-ATCCTATCTTCCTGAAG-TTACAGAGGAGCAGAT-GAA
** * * * * *
9061640 GCCACAA-ACCTTATCTCCCTGAAGTTACAGTGGGGCT-GGTTGAATATGCAA
127 AACA-AAGACCTCATCTCCCTGAAGTTACAGTAGAG-TAGATCGAA-A--CAA
*
9061691 GTCTTATCTCCCTGAGGTTACAGTGGAGTGGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
1 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
* * * * *
9061756 ACAGTGGAGCAGATTGGAGCTAGTAATCCTATCTTCCTGAAGTTACAGTGGAGCGGATTAAAATA
66 ACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTTCCTGAAGTTACAGAGGAGCAGATGAAAACA
* * *
9061821 AAGGATCTCATCTCTCTGAAGTTACAGTAGAGTAGATCGCAACAA
131 AA-GACCTCATCTCCCTGAAGTTACAGTAGAGTAGATCGAAACAA
* * * * *
9061866 ATCTTATCTCCCTAAGGTTACAGTGGAGTAAACCAAAGAATTTCAGGTCTTATCTCCCTGAGGTT
1 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
* * * *
9061931 ACAGTGGAGCAGGTCGAAGATGGTAGATCCTATCT
66 ACAGTGGAGCAGATTGAAGCTAGTA-ATCCTATCT
9061966 CCCTAAGCAG
Statistics
Matches: 237, Mismatches: 31, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
175 82 0.35
176 11 0.05
177 5 0.02
178 135 0.57
179 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (174 bp):
GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
ACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTTCCTGAAGTTACAGAGGAGCAGATGAAAACA
AAGACCTCATCTCCCTGAAGTTACAGTAGAGTAGATCGAAACAA
Found at i:9061845 original size:134 final size:129
Alignment explanation
Indices: 9061601--9061893 Score: 288
Period size: 134 Copynumber: 2.2 Consensus size: 129
9061591 TTGAAGCTAG
* * *
9061601 AGATCTTATCTTCCTGAGATTACAGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAAGTT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAAGTT
* * * * * * * *
9061666 ACAGTGGGGCTGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACAGTGGAGTGGACCGAAGAA
66 ACAGTGGAGCTGGTTGAAAATGAAAGTCTCATCTCCCTGAAGTTACAGTAGAGTAGACCG--CAA
9061731 TTTC
129 ---C
* * * * * *
9061735 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGGAGCTAGTAATCC-TATCTTCCTGAAGT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGCCA-CAAACCTTATCTCCCTGAAGT
* *
9061799 TACAGTGGAGC-GGATT-AAAAT-AAAGGATCTCATCTCTCTGAAGTTACAGTAGAGTAGATCGC
65 TACAGTGGAGCTGG-TTGAAAATGAAA-G-TCTCATCTCCCTGAAGTTACAGTAGAGTAGACCGC
9061861 AAC
127 AAC
* *
9061864 AAATCTTATCTCCCTAAGGTTACAGTGGAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAG
9061894 TAAACCAAAG
Statistics
Matches: 134, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
129 29 0.22
132 4 0.03
133 7 0.05
134 90 0.67
135 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (129 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAAGTT
ACAGTGGAGCTGGTTGAAAATGAAAGTCTCATCTCCCTGAAGTTACAGTAGAGTAGACCGCAAC
Found at i:9061985 original size:44 final size:44
Alignment explanation
Indices: 9061933--9062336 Score: 395
Period size: 44 Copynumber: 9.2 Consensus size: 44
9061923 CTGAGGTTAC
* **
9061933 AGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGT
9061977 AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGT
* * **** * *
9062021 AGTGGAGCAGATCGAAGA-CGGCGAAT-CTCATCTTCCTAAGCAGC
1 AGTGGAGCAGGTCAAAGATATTAG-ATCCT-ATCTCCCTAAGCAGT
* * ** ** ** *
9062065 AGTGAAGCAGATTTAAGCCACCAG-TCATATCTCCCTAAGCAGT
1 AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGT
9062108 AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGT
* **** * * *
9062152 AGTGGAGCAGATCAAAGA-CGGCGAATCTTATCTTCCTAAGTAGT
1 AGTGGAGCAGGTCAAAGATATTAG-ATCCTATCTCCCTAAGCAGT
* * * ** ** **
9062196 AGTGAAGTAGATTTAAGCCACCAG-TCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGT
*
9062239 AGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGT
9062283 AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGT
*
9062327 AGCGGAGCAG
1 AGTGGAGCAG
9062337 ACAGAAAAAA
Statistics
Matches: 289, Mismatches: 63, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
43 64 0.22
44 223 0.77
45 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (44 bp):
AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGT
Found at i:9062105 original size:131 final size:131
Alignment explanation
Indices: 9061961--9062300 Score: 608
Period size: 131 Copynumber: 2.6 Consensus size: 131
9061951 TGGTAGATCC
9061961 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
*
9062026 AGCAGATCGAAGACGGCGAATCTCATCTTCCTAAGCAGCAGTGAAGCAGATTTAAGCCACCAGTC
66 AGCAGATCAAAGACGGCGAATCTCATCTTCCTAAGCAGCAGTGAAGCAGATTTAAGCCACCAGTC
9062091 A
131 A
9062092 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
* * * *
9062157 AGCAGATCAAAGACGGCGAATCTTATCTTCCTAAGTAGTAGTGAAGTAGATTTAAGCCACCAGTC
66 AGCAGATCAAAGACGGCGAATCTCATCTTCCTAAGCAGCAGTGAAGCAGATTTAAGCCACCAGTC
*
9062222 C
131 A
*
9062223 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
*
9062288 AGCAGGTCAAAGA
66 AGCAGATCAAAGA
9062301 TATTAGATCC
Statistics
Matches: 201, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
131 201 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (131 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
AGCAGATCAAAGACGGCGAATCTCATCTTCCTAAGCAGCAGTGAAGCAGATTTAAGCCACCAGTC
A
Found at i:9062114 original size:175 final size:175
Alignment explanation
Indices: 9061933--9062337 Score: 474
Period size: 175 Copynumber: 2.3 Consensus size: 175
9061923 CTGAGGTTAC
* ** * *
9061933 AGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATAT
1 AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGA-AG
* * ** * *
9061998 TAG-ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAAT-CTCATCTTCCTAAG
65 GAGAATCCTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAG-CCACCAATCCT-ATCTCCCTAAG
** *
9062061 CAGCAGTGAAGCAGATTTAAGCCACCAG-TCATATCTCCCTAAGCAGT
128 CAGCAGTGAAGCAGATCAAAGACACCAGATCATATCTCCCTAAGCAGT
*
9062108 AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
1 AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAAGG
* * * * * ** *
9062173 CGAATCTTATCTTCCTAAGTAGTAGTGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAG
66 AGAATCCTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGCCACCAATCCTATCTCCCTAAGCAG
* * * **** *
9062238 TAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGCAGT
131 CAGTGAAGCAGATCAAAGACACCAGATCATATCTCCCTAAGCAGT
*
9062283 AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGCGGAGCAGA
1 AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGA
9062338 CAGAAAAAAC
Statistics
Matches: 195, Mismatches: 32, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
174 33 0.17
175 162 0.83
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (175 bp):
AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAAGG
AGAATCCTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGCCACCAATCCTATCTCCCTAAGCAG
CAGTGAAGCAGATCAAAGACACCAGATCATATCTCCCTAAGCAGT
Found at i:9062756 original size:14 final size:14
Alignment explanation
Indices: 9062737--9062763 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9062727 TTCTGCTTGT
9062737 TTATTTTATTTTAC
1 TTATTTTATTTTAC
9062751 TTATTTTATTTTA
1 TTATTTTATTTTA
9062764 TCTTTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTTATTTTAC
Found at i:9063569 original size:3 final size:3
Alignment explanation
Indices: 9063526--9063606 Score: 67
Period size: 3 Copynumber: 26.0 Consensus size: 3
9063516 TTTAGCAGTC
* *
9063526 TTA TTA TT- TTG TTAA TTA TT- TTAA TGTA TTA TCA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TT-A T-TA TTA TTA -TTA TTA TTA TTA
* *
9063573 TTA TTA CTA TTA TTA TCA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
9063607 GTTTTATTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
2 4 0.06
3 49 0.77
4 10 0.16
5 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:9072400 original size:8 final size:8
Alignment explanation
Indices: 9072380--9072423 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
9072370 TAAGTCTATA
*
9072380 ATTTTATC
1 ATTTTATT
9072388 A-TTTATT
1 ATTTTATT
9072395 ATTTTATT
1 ATTTTATT
9072403 ATTTTATT
1 ATTTTATT
9072411 ATTTTATT
1 ATTTTATT
9072419 ATTTT
1 ATTTT
9072424 TAAGGAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
7 6 0.18
8 28 0.82
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (8 bp):
ATTTTATT
Found at i:9076255 original size:13 final size:13
Alignment explanation
Indices: 9076222--9076261 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
9076212 TTTAAATCAA
* *
9076222 ACTTTTCAAAAGC
1 ACTTTTCCACAGC
9076235 ACTTTTCCACAGC
1 ACTTTTCCACAGC
9076248 ACTTTTCCACAGC
1 ACTTTTCCACAGC
9076261 A
1 A
9076262 ACGAAGAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.30, C:0.33, G:0.07, T:0.30
Consensus pattern (13 bp):
ACTTTTCCACAGC
Found at i:9077990 original size:28 final size:28
Alignment explanation
Indices: 9077959--9078016 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
9077949 CGTATTCAAT
*
9077959 AATAGTAATAAAATCATA-TTTAAAAATA
1 AATAGTAATAAAA-AATATTTTAAAAATA
* *
9077987 AATATTATTAAAAAATATTTTAAAAATA
1 AATAGTAATAAAAAATATTTTAAAAATA
9078015 AA
1 AA
9078017 AATTTAACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 3 0.12
28 23 0.88
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (28 bp):
AATAGTAATAAAAAATATTTTAAAAATA
Found at i:9083159 original size:13 final size:14
Alignment explanation
Indices: 9083143--9083171 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9083133 TTTTTTTTCC
9083143 TAAATTTAT-TTTT
1 TAAATTTATATTTT
9083156 TAAATTTATATTTT
1 TAAATTTATATTTT
9083170 TA
1 TA
9083172 CCCAAATCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TAAATTTATATTTT
Found at i:9098345 original size:106 final size:106
Alignment explanation
Indices: 9098151--9098357 Score: 292
Period size: 106 Copynumber: 2.0 Consensus size: 106
9098141 GGCCTCAGCC
* *
9098151 AAAGCTATCATTATGCTTTGCCAAAAGCAAAGATAAGAGACCATTAAGTTAAAGAAATTTTAACC
1 AAAGCTATCACTATGCTTTGCCAAAAGCAAAGAGAAGAGACCATTAAGTTAAAGAAATTTTAACC
* *
9098216 AAAATGGTAGCTCACCCATGAAAAAGCATATAATAATGGCT
66 AAAATGATAGCTCACCCAGGAAAAAGCATATAATAATGGCT
* * * ***
9098257 AAAGCTATCACTATGTTTTGCCAAAAGCAAAGAGGAGAGACCATTGAG-TATAAGTTTTTTTAAC
1 AAAGCTATCACTATGCTTTGCCAAAAGCAAAGAGAAGAGACCATTAAGTTA-AAGAAATTTTAAC
9098321 CAAAATGATAGCT-ACCCCAGGAAAAAGCATATAATAA
65 CAAAATGATAGCTCA-CCCAGGAAAAAGCATATAATAA
9098358 AGGCCAAACT
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
105 3 0.03
106 86 0.97
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (106 bp):
AAAGCTATCACTATGCTTTGCCAAAAGCAAAGAGAAGAGACCATTAAGTTAAAGAAATTTTAACC
AAAATGATAGCTCACCCAGGAAAAAGCATATAATAATGGCT
Found at i:9103939 original size:30 final size:30
Alignment explanation
Indices: 9103898--9103962 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
9103888 TTTTATAATT
*
9103898 TATAGTTTCTTTT-ATATTTTAAAA-AGTTTA
1 TATAATTTCTTTTAAT-TTTTAAAACA-TTTA
9103928 TATAATTTCTTTTAATTTTTAAAACATTTA
1 TATAATTTCTTTTAATTTTTAAAACATTTA
9103958 TATAA
1 TATAA
9103963 AAAATTATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 29 0.91
31 3 0.09
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (30 bp):
TATAATTTCTTTTAATTTTTAAAACATTTA
Found at i:9126808 original size:18 final size:20
Alignment explanation
Indices: 9126769--9126805 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9126759 CTTTTATATA
*
9126769 ATAATTTTTTTAATAAAAAT
1 ATAATTGTTTTAATAAAAAT
9126789 ATAATTGTTTT-ATAAAA
1 ATAATTGTTTTAATAAAA
9126806 TATTATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
ATAATTGTTTTAATAAAAAT
Found at i:9127202 original size:25 final size:26
Alignment explanation
Indices: 9127156--9127204 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
9127146 ACTTTAATTT
** *
9127156 ATCTTTTAATTTTTTTCTGTTGTTGC
1 ATCTTTTAAAATTTTACTGTTGTTGC
9127182 ATCTTTTAAAATTTTAC-GTTGTT
1 ATCTTTTAAAATTTTACTGTTGTT
9127205 AATTTTGATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.18, C:0.10, G:0.10, T:0.61
Consensus pattern (26 bp):
ATCTTTTAAAATTTTACTGTTGTTGC
Found at i:9127736 original size:21 final size:22
Alignment explanation
Indices: 9127712--9127753 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
9127702 TGTTTGTTAA
*
9127712 TTATATTTTA-ATTTTTAATGG
1 TTATATTTTACAATTTTAATGG
9127733 TTATATTTTACAATTTTAATG
1 TTATATTTTACAATTTTAATG
9127754 AATCAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (22 bp):
TTATATTTTACAATTTTAATGG
Found at i:9130713 original size:43 final size:43
Alignment explanation
Indices: 9130644--9130916 Score: 330
Period size: 43 Copynumber: 6.3 Consensus size: 43
9130634 TTATTTGAAA
* * * *
9130644 AAACGCCGCTAAAGAACATGATCTTTAACGGCACTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* *
9130687 AAATGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
9130730 AAACGCCGCTAAAAAACATAATCTTTAGCAGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
** * ** * *
9130773 AAACGCCGCTAAAGGTCAGGTTCTTTAGCAGCGCTTTTCTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
** * *
9130816 AAACATCGCTAAAGAACCTGACCTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* *
9130859 AAACGCCGCTAAAGAACCTGACCTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
9130902 AAACGCCGCTAAAGA
1 AAACGCCGCTAAAGA
9130917 TCATAAAAAA
Statistics
Matches: 196, Mismatches: 34, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 196 1.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:9133495 original size:13 final size:13
Alignment explanation
Indices: 9133477--9133502 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9133467 GCTGAAGCTT
9133477 TGTAAAATGTAAA
1 TGTAAAATGTAAA
9133490 TGTAAAATGTAAA
1 TGTAAAATGTAAA
9133503 AATTTTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTAAAATGTAAA
Found at i:9135588 original size:21 final size:22
Alignment explanation
Indices: 9135549--9135605 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 22
9135539 CCCGACCCTG
9135549 AATCTCTAAA-CTCTAAATCACT
1 AATCT-TAAACCTCTAAATCACT
*
9135571 AACTCTT-AACCTCT-AATCCCT
1 AA-TCTTAAACCTCTAAATCACT
9135592 AATCTTAAACCTCT
1 AATCTTAAACCTCT
9135606 GACCCCTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.13
21 17 0.55
22 7 0.23
23 3 0.10
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.33
Consensus pattern (22 bp):
AATCTTAAACCTCTAAATCACT
Found at i:9135612 original size:21 final size:21
Alignment explanation
Indices: 9135569--9135616 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
9135559 CTCTAAATCA
*
9135569 CTAACTCTTAACCTCTAATCC
1 CTAACTCTTAACCTCTAACCC
*
9135590 CTAA-TCTTAAACCTCTGACCC
1 CTAACTCTT-AACCTCTAACCC
9135611 CTAACT
1 CTAACT
9135617 ACTAGCCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 18 0.78
22 1 0.04
ACGTcount: A:0.29, C:0.38, G:0.02, T:0.31
Consensus pattern (21 bp):
CTAACTCTTAACCTCTAACCC
Found at i:9135711 original size:22 final size:21
Alignment explanation
Indices: 9135664--9135711 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
9135654 ACCTCAGTCT
*
9135664 TTAAACCATAAACCATAACCC
1 TTAAACCATAAACCATAAACC
* * *
9135685 CTAAACCCATAATCTATAAACC
1 TTAAA-CCATAAACCATAAACC
9135707 TTAAA
1 TTAAA
9135712 ATGGTAACAC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (21 bp):
TTAAACCATAAACCATAAACC
Found at i:9136216 original size:73 final size:73
Alignment explanation
Indices: 9136139--9136299 Score: 252
Period size: 73 Copynumber: 2.2 Consensus size: 73
9136129 GCGCTTCCTT
*
9136139 AAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTTT-GGCTCAGGTTATTTGCGG
1 AAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCATC-TTTTCGGCTCAAGTTATTTGCGG
9136203 CGCTTTATA
65 CGCTTTATA
* * * *
9136212 AAAAACGCCGCTAAATCCCCGAAAGCTCACAAAATGGCGTCTTTTCGGCTTAAGTTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCTTTTCGGCTCAAGTTATTTGCGGC
*
9136277 GCTTTATC
66 GCTTTATA
9136285 AAAAACGCCGCTAAA
1 AAAAACGCCGCTAAA
9136300 GCCCTGAGCA
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
72 4 0.05
73 77 0.95
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (73 bp):
AAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCTTTTCGGCTCAAGTTATTTGCGGC
GCTTTATA
Found at i:9136321 original size:114 final size:112
Alignment explanation
Indices: 9136212--9136526 Score: 477
Period size: 113 Copynumber: 2.8 Consensus size: 112
9136202 GCGCTTTATA
* *
9136212 AAAAACGCCGCTAAATCCCCGAAAGCTCACAAAATGGCGTCTTTTCGGCTTAAGTTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCTTTT-GGCTTAGGTTTTTTGCGGC
9136277 GCTTTATCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTT
65 GCTTT-TCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTT
* * *
9136326 AAAAACGCCGCTAAATCCCCGAAAGCTTACAAAACGGCATTGTTTTGGCTTAGGTTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGC-GTCTTTTGGCTTAGGTTTTTTGCGGC
* * * *
9136391 GCTTTCCCAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCGATTCCTT
65 GCTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTT
* *
9136439 AAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGTGTCATTTTGGCTTAGGTTTTTTGCAGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTC-TTTTGGCTTAGGTTTTTTGCGGC
*
9136504 GCTTTCTTAAAAACGCCGCTAAA
65 GCTTT-TCAAAAACGCCGCTAAA
9136527 TCCCCAAAAG
Statistics
Matches: 181, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
112 1 0.01
113 102 0.56
114 73 0.40
115 5 0.03
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (112 bp):
AAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCTTTTGGCTTAGGTTTTTTGCGGCG
CTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTT
Found at i:9136340 original size:187 final size:185
Alignment explanation
Indices: 9136004--9136412 Score: 613
Period size: 187 Copynumber: 2.2 Consensus size: 185
9135994 GAAAGCGCTT
* * * *
9136004 AGGTTTTTTGCGACGCTTTCTAAAAACGCCGCAAAATCCTCTAAAGCTCACAAAACGGCGCCGTT
1 AGGTTTTTTGCGGCGCTTT-TAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGCCGTT
* *
9136069 TTGGCTTAAGTTTTTTGCTGCGCTTTCCCAAAAACGCCACTAAAGCCCTGAGCATTAACGGCGCT
65 TTGGCTTAAGTTTTTTGCGGCGCTTTACCAAAAACGCCACTAAAGCCCTGAGCATTAACGGCGCT
9136134 TCCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTTTGGCTC
130 TCCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTTTGGCTC
* * *
9136190 AGGTTATTTGCGGCGCTTTATAAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAATGGCGTC-T
1 AGGTTTTTTGCGGCGCTTT-T-AAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGCCGT
* * *
9136254 TTTCGGCTTAAGTTTTTTGCGGCGCTTTATCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCG
64 TTT-GGCTTAAGTTTTTTGCGGCGCTTTACCAAAAACGCCACTAAAGCCCTGAGCATTAACGGCG
* * *
9136319 CTTCCTTAAAAACGCCGCTAAATCCCCGAAAGCTTACAAAACGGCATTGTTTTGGCTT
128 CTTCCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTTTGGCTC
**
9136377 AGGTTTTTTGCGGCGCTTTCCCAAAACGCCGCTAAA
1 AGGTTTTTTGCGGCGCTTT-TAAAAACGCCGCTAAA
9136413 GCCTTGAGCA
Statistics
Matches: 201, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
186 36 0.18
187 165 0.82
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (185 bp):
AGGTTTTTTGCGGCGCTTTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGCCGTTT
TGGCTTAAGTTTTTTGCGGCGCTTTACCAAAAACGCCACTAAAGCCCTGAGCATTAACGGCGCTT
CCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTTTGGCTC
Found at i:9136526 original size:73 final size:72
Alignment explanation
Indices: 9136436--9136587 Score: 209
Period size: 73 Copynumber: 2.1 Consensus size: 72
9136426 GCGGCGATTC
* * *
9136436 CTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGTGTCAT-TTTGGCTTAGGTTTTTTG
1 CTTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGT--TGTTGGGCTTAGGTTTTTTG
9136500 CAGCGCTTT
64 CAGCGCTTT
* * *
9136509 CTTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAATGGCGTTGTTGGGCTTAGGTTTTTTGCG
1 CTTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTTGTTGGGCTTAGGTTTTTTGCA
*
9136574 GTGCTTT
66 GCGCTTT
9136581 -TTAAAAA
1 CTTAAAAA
9136588 ATACCGCTAA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
71 8 0.11
72 24 0.34
73 39 0.55
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (72 bp):
CTTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTTGTTGGGCTTAGGTTTTTTGCA
GCGCTTT
Found at i:9137660 original size:124 final size:124
Alignment explanation
Indices: 9137284--9137707 Score: 636
Period size: 125 Copynumber: 3.4 Consensus size: 124
9137274 ATGCTTTATT
* * * * * *
9137284 AGAAGGATTTCTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTATAGTAGGTCCTGGAAAAATAA
1 AGAAGAATTTGTGAAATCGCGCCCTCGTGAACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAA
*
9137349 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAAAATGCT-TTATG
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAACGCTTCAAGCAGAATGCTATT-TG
*
9137409 AGTAGAATTTGTGAAATCGCGCCCTCGTGAACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATA
1 AGAAGAATTTGTGAAATCGCGCCCTCGTGAACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATA
* * *
9137474 ATTTCGAGTTGATGTTTCTGAGCAAATAGTTTAAAAACGCTTCAAGCAGGATGCTATTTG
65 ATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAGCAGAATGCTATTTG
* *
9137534 AGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAA
1 AGAAGAATTTGTGAAATCGCGCCCTCGTGAACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAA
* * * *
9137599 TTTCGAGTTGACGTTTTTGAGCAAATAGTATAAAAACACTTCTAGCAGTATGCTATTTG
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAGCAGAATGCTATTTG
*
9137658 AGAAGAATTTGTGAAATCGCG-CCTCCGTGAACGTGCTTTTGCTACAGTAG
1 AGAAGAATTTGTGAAATCGCGCCCT-CGTGAACGCGCTTTTGCTACAGTAG
9137708 CATGTTTGGG
Statistics
Matches: 273, Mismatches: 23, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
123 3 0.01
124 102 0.37
125 131 0.48
126 37 0.14
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (124 bp):
AGAAGAATTTGTGAAATCGCGCCCTCGTGAACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAA
TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAGCAGAATGCTATTTG
Found at i:9140903 original size:21 final size:21
Alignment explanation
Indices: 9140873--9140994 Score: 115
Period size: 21 Copynumber: 5.8 Consensus size: 21
9140863 TAAAATTATA
9140873 TTTAAGTTAAGGGTTAAGGTT
1 TTTAAGTTAAGGGTTAAGGTT
* * *
9140894 TTTAACTTAAGTGTTAGGGTT
1 TTTAAGTTAAGGGTTAAGGTT
*
9140915 TGTT-ATTTAAGGGTTACA-GTT
1 T-TTAAGTTAAGGGTTA-AGGTT
*
9140936 TTAAAGTTAAGGGCTT-AGAGTT
1 TTTAAGTTAAGGG-TTAAG-GTT
* * *
9140958 TTTAATTTAAGGGTTACGATT
1 TTTAAGTTAAGGGTTAAGGTT
9140979 TTTAAGTTAAGGGTTA
1 TTTAAGTTAAGGGTTA
9140995 GAGTTAGAGT
Statistics
Matches: 81, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
20 2 0.02
21 60 0.74
22 19 0.23
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.44
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAAGGTT
Found at i:9140972 original size:43 final size:42
Alignment explanation
Indices: 9140873--9140999 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 42
9140863 TAAAATTATA
* * * *
9140873 TTTAAGTTAAGGGTTA-AGGTTTTTAACTTAAGTGTTAGGGTT
1 TTTAATTTAAGGGTTACA-GTTTTTAAGTTAAGGGTTAGAGTT
*
9140915 TGTT-ATTTAAGGGTTACAGTTTTAAAGTTAAGGGCTTAGAGTT
1 T-TTAATTTAAGGGTTACAGTTTTTAAGTTAAGGG-TTAGAGTT
9140958 TTTAATTTAAGGGTTAC-GATTTTTAAGTTAAGGGTTAGAGTT
1 TTTAATTTAAGGGTTACAG-TTTTTAAGTTAAGGGTTAGAGTT
9141000 AGAGTTTTTA
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
42 36 0.49
43 38 0.51
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.44
Consensus pattern (42 bp):
TTTAATTTAAGGGTTACAGTTTTTAAGTTAAGGGTTAGAGTT
Found at i:9140989 original size:64 final size:63
Alignment explanation
Indices: 9140876--9140999 Score: 153
Period size: 64 Copynumber: 2.0 Consensus size: 63
9140866 AATTATATTT
* * * *
9140876 AAGTTAAGGGTTAAGGTTTTTAACTTAAGTGTTAGGGTTTGTTATTTAAGGGTTACAGTTTTA
1 AAGTTAAGGGTTAAGGTTTTTAACTTAAGGGTTACGATTTGTTAGTTAAGGGTTACAGTTTTA
* *
9140939 AAGTTAAGGGCTT-AGAGTTTTTAATTTAAGGGTTACGATTT-TTAAGTTAAGGGTTAGAGTT
1 AAGTTAAGGG-TTAAG-GTTTTTAACTTAAGGGTTACGATTTGTT-AGTTAAGGGTTACAGTT
9141000 AGAGTTTTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
63 14 0.27
64 38 0.73
ACGTcount: A:0.28, C:0.03, G:0.26, T:0.43
Consensus pattern (63 bp):
AAGTTAAGGGTTAAGGTTTTTAACTTAAGGGTTACGATTTGTTAGTTAAGGGTTACAGTTTTA
Found at i:9141576 original size:18 final size:18
Alignment explanation
Indices: 9141550--9141592 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9141540 AACTCGGAAA
* *
9141550 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
9141568 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
9141586 AGGAAAC
1 AGGAAAC
9141593 GTACTTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:9142249 original size:7 final size:7
Alignment explanation
Indices: 9142239--9142264 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9142229 TTATATACAT
9142239 AATACTA
1 AATACTA
9142246 AATACTA
1 AATACTA
9142253 AATACTA
1 AATACTA
9142260 AATAC
1 AATAC
9142265 CAATCAACTA
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:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:9142470 original size:20 final size:20
Alignment explanation
Indices: 9142433--9142470 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9142423 TTTATTTTTA
*
9142433 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
9142453 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
9142471 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:9144209 original size:7 final size:7
Alignment explanation
Indices: 9144199--9144224 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9144189 TTATATACAT
9144199 AATACTA
1 AATACTA
9144206 AATACTA
1 AATACTA
9144213 AATACTA
1 AATACTA
9144220 AATAC
1 AATAC
9144225 CAATCAACTA
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:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:9144430 original size:20 final size:20
Alignment explanation
Indices: 9144393--9144430 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9144383 TTTATTTTTA
*
9144393 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
9144413 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
9144431 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:9145410 original size:51 final size:51
Alignment explanation
Indices: 9145366--9145465 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
9145356 AATTATTTAA
*
9145366 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAGATT
1 AAATAGGAATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAGATT
* * * *
9145417 AAATATGAATTTGAGAGAAATTTGGAAGGAATTTGAGAGCAAATTGAGA
1 AAATAGGAATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAGA
9145466 GGAAATTTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.26, T:0.26
Consensus pattern (51 bp):
AAATAGGAATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAGATT
Found at i:9145438 original size:11 final size:11
Alignment explanation
Indices: 9145424--9145479 Score: 62
Period size: 11 Copynumber: 5.0 Consensus size: 11
9145414 ATTAAATATG
9145424 AATTTGAGAGA
1 AATTTGAGAGA
*
9145435 AATTTG-GAAGG
1 AATTTGAG-AGA
9145446 AATTTGAGAGCA
1 AATTTGAGAG-A
9145458 AA-TTGAGAGGA
1 AATTTGAGA-GA
9145469 AATTTGAGAGA
1 AATTTGAGAGA
9145480 GGATTAGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 1 0.03
11 27 0.71
12 10 0.26
ACGTcount: A:0.43, C:0.02, G:0.30, T:0.25
Consensus pattern (11 bp):
AATTTGAGAGA
Found at i:9145472 original size:23 final size:22
Alignment explanation
Indices: 9145423--9145479 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 22
9145413 GATTAAATAT
9145423 GAATTTGAGAGAAATTTGGAAG
1 GAATTTGAGAGAAATTTGGAAG
9145445 GAATTTGAGAGCAAA-TT-GAGAG
1 GAATTTGAGAG-AAATTTGGA-AG
9145467 GAAATTTGAGAGA
1 G-AATTTGAGAGA
9145480 GGATTAGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
21 2 0.06
22 17 0.53
23 13 0.41
ACGTcount: A:0.42, C:0.02, G:0.32, T:0.25
Consensus pattern (22 bp):
GAATTTGAGAGAAATTTGGAAG
Found at i:9147131 original size:102 final size:102
Alignment explanation
Indices: 9146943--9147132 Score: 256
Period size: 102 Copynumber: 1.9 Consensus size: 102
9146933 TTTTTAATTT
* * * *
9146943 ATATATTTAATTAATAATTCTTTTATTTATATAAATAAAACAATAAATATGGAATTGTACAATAA
1 ATATATTTAATTAATAATTATTTTATTGATATAAACAAAACAATAAATATGGAATTATACAATAA
* *
9147008 AAATATATCTATCTTTCATTATGTTAATATGTTAAAA
66 AAATATATCTATATATCATTATGTTAATATGTTAAAA
* * * * *
9147045 ATATTTTTAATTAATAATTATTTTATTGATATAAACAAAATAATAAATATGGAGTTATATAATGA
1 ATATATTTAATTAATAATTATTTTATTGATATAAACAAAACAATAAATATGGAATTATACAATAA
*
9147110 GAATATATACTATATAT-ATTATG
66 AAATATAT-CTATATATCATTATG
9147133 CTAAAAATAT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
102 69 0.92
103 6 0.08
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (102 bp):
ATATATTTAATTAATAATTATTTTATTGATATAAACAAAACAATAAATATGGAATTATACAATAA
AAATATATCTATATATCATTATGTTAATATGTTAAAA
Found at i:9147695 original size:2 final size:2
Alignment explanation
Indices: 9147688--9147717 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9147678 AGGAAGAGGC
9147688 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
9147718 CGGGAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9157181 original size:36 final size:36
Alignment explanation
Indices: 9157130--9157200 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
9157120 ATCTTTATAG
*
9157130 CAACGAAAAAACATAGACCAACACAAGCCACCTTAT
1 CAACAAAAAAACATAGACCAACACAAGCCACCTTAT
9157166 CAACAAAAAAACATAGACCAACACAAGCCACCTTA
1 CAACAAAAAAACATAGACCAACACAAGCCACCTTA
9157201 CACATCATGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.52, C:0.31, G:0.07, T:0.10
Consensus pattern (36 bp):
CAACAAAAAAACATAGACCAACACAAGCCACCTTAT
Found at i:9158970 original size:3 final size:3
Alignment explanation
Indices: 9158945--9159005 Score: 81
Period size: 3 Copynumber: 21.0 Consensus size: 3
9158935 TAATAGCTCC
* * *
9158945 ATT ATT -TT -TT ATT ATC ATC ATT ATT ATT ATT ATT ACT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9158991 ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT
9159006 TTTAATGTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 4 0.08
3 49 0.92
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:9176253 original size:2 final size:2
Alignment explanation
Indices: 9176246--9176278 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9176236 TACGACACAA
9176246 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9176279 AACAGAATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9187159 original size:26 final size:26
Alignment explanation
Indices: 9187130--9187199 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
9187120 CCCGTTATAT
*
9187130 GGCTCTTCGTGAGCTTCCCAATTAAA
1 GGCTCTTCGTGAGTTTCCCAATTAAA
* ** *
9187156 GGCTCTTTGTGAGTTTCCTGATTAAT
1 GGCTCTTCGTGAGTTTCCCAATTAAA
9187182 GGCTCTTCG-GAGTTTCCC
1 GGCTCTTCGTGAGTTTCCC
9187200 GATATGGCTC
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 8 0.22
26 29 0.78
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
GGCTCTTCGTGAGTTTCCCAATTAAA
Found at i:9187267 original size:25 final size:25
Alignment explanation
Indices: 9187128--9187273 Score: 93
Period size: 25 Copynumber: 5.8 Consensus size: 25
9187118 GTCCCGTTAT
**
9187128 ATGGCTCTTCGTGAGCTTCCCAATTA
1 ATGGCTCTTC-TGAGCTTCCTGATTA
* * *
9187154 AAGGCTCTTTGTGAGTTTCCTGATTA
1 ATGGCTC-TTCTGAGCTTCCTGATTA
* * *
9187180 ATGGCTCTTCGGAGTTTCCCGA-T-
1 ATGGCTCTTCTGAGCTTCCTGATTA
* *
9187203 ATGGCTC-ACTTGAACTTCCTGA-TA
1 ATGGCTCTTC-TGAGCTTCCTGATTA
* * * *
9187227 TATGGCTATCCGGAGCTTCCTAATTA
1 -ATGGCTCTTCTGAGCTTCCTGATTA
*
9187253 ATGGCTCTTCTGAGCTACCTG
1 ATGGCTCTTCTGAGCTTCCTG
9187274 TTATTTCTCG
Statistics
Matches: 90, Mismatches: 24, Indels: 13
0.71 0.19 0.10
Matches are distributed among these distances:
22 1 0.01
23 16 0.18
24 1 0.01
25 43 0.48
26 27 0.30
27 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (25 bp):
ATGGCTCTTCTGAGCTTCCTGATTA
Found at i:9189780 original size:25 final size:26
Alignment explanation
Indices: 9189752--9189809 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
9189742 CCAAGATGTA
* *
9189752 CCACAAAG-GCAACATACAGTATACG
1 CCACAAAGTACAACATACAGAATACG
9189777 CCAC-AAGTACAACATACAGAATACG
1 CCACAAAGTACAACATACAGAATACG
*
9189802 CCAAAAAG
1 CCACAAAG
9189810 ACTAAGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 3 0.11
25 22 0.79
26 3 0.11
ACGTcount: A:0.48, C:0.28, G:0.14, T:0.10
Consensus pattern (26 bp):
CCACAAAGTACAACATACAGAATACG
Found at i:9192906 original size:17 final size:17
Alignment explanation
Indices: 9192886--9192921 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
9192876 TAATTAGTTA
9192886 AATT-AATTAATTTTCTC
1 AATTAAATT-ATTTTCTC
9192903 AATTAAATTATTTTCTC
1 AATTAAATTATTTTCTC
9192920 AA
1 AA
9192922 CCCAATTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTAAATTATTTTCTC
Found at i:9195199 original size:32 final size:32
Alignment explanation
Indices: 9195158--9195222 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
9195148 GTTTAAGAGT
9195158 AGATCTTGCGTAATTGAGTGGAGTTGCATACA
1 AGATCTTGCGTAATTGAGTGGAGTTGCATACA
*
9195190 AGATCTTGCGTAGTTGAGTGGAGTTGCATACA
1 AGATCTTGCGTAATTGAGTGGAGTTGCATACA
9195222 A
1 A
9195223 TCCTAGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.31
Consensus pattern (32 bp):
AGATCTTGCGTAATTGAGTGGAGTTGCATACA
Found at i:9196979 original size:25 final size:24
Alignment explanation
Indices: 9196928--9196976 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
9196918 GTATGGAAAG
9196928 TAAGAAAAAGAAATTATATTCTTT
1 TAAGAAAAAGAAATTATATTCTTT
9196952 TAAGAAAAAGAAATTATATTCTTT
1 TAAGAAAAAGAAATTATATTCTTT
9196976 T
1 T
9196977 TAAAAGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (24 bp):
TAAGAAAAAGAAATTATATTCTTT
Found at i:9208809 original size:18 final size:18
Alignment explanation
Indices: 9208776--9208810 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9208766 ACCAATCTAA
*
9208776 CAATAAACTTCAGTCAAT
1 CAATAAACTACAGTCAAT
*
9208794 CAATAAACTACTGTCAA
1 CAATAAACTACAGTCAA
9208811 AAGTCCTAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.26
Consensus pattern (18 bp):
CAATAAACTACAGTCAAT
Found at i:9218242 original size:16 final size:17
Alignment explanation
Indices: 9218221--9218275 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
9218211 ATCAAAAGAA
*
9218221 AATAAA-TATGTTTTAT
1 AATAAATTATATTTTAT
9218237 AATAAATTTTATATTTTAT
1 AATAAA--TTATATTTTAT
*
9218256 AATTAAATTATTTTTTAT
1 AA-TAAATTATATTTTAT
9218274 AA
1 AA
9218276 ATACTAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 6 0.18
18 12 0.36
19 11 0.33
20 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
AATAAATTATATTTTAT
Found at i:9225081 original size:25 final size:24
Alignment explanation
Indices: 9225053--9225106 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 24
9225043 TGTATATATT
9225053 TCTTAAATATTTAAATAAATCAAA-A
1 TCTTAAA-ATTTAAA-AAATCAAAGA
9225078 TCTTTTAAAATTTAAAAAATCAAAGA
1 TC--TTAAAATTTAAAAAATCAAAGA
9225104 TCT
1 TCT
9225107 AAACTGATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
24 1 0.04
25 10 0.38
26 10 0.38
27 5 0.19
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.37
Consensus pattern (24 bp):
TCTTAAAATTTAAAAAATCAAAGA
Found at i:9225091 original size:26 final size:27
Alignment explanation
Indices: 9225055--9225106 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
9225045 TATATATTTC
9225055 TTAAATATTTAAATAAATCAAA-ATCTT
1 TTAAATATTTAAA-AAATCAAAGATCTT
9225082 TTAAA-ATTTAAAAAATCAAAGATCT
1 TTAAATATTTAAAAAATCAAAGATCT
9225107 AAACTGATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 8 0.33
26 11 0.46
27 5 0.21
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.37
Consensus pattern (27 bp):
TTAAATATTTAAAAAATCAAAGATCTT
Found at i:9227185 original size:4 final size:5
Alignment explanation
Indices: 9227160--9227227 Score: 57
Period size: 6 Copynumber: 12.4 Consensus size: 5
9227150 TTAATGATGT
*
9227160 TTTTA TTTTA TTTTA TTTTA -TTTA TTTTA TTCTTGA CTTTCA TTATTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TT-A -TTTTA TT-TTA
9227208 TTATTA TTATTA TTGTTA TT
1 TT-TTA TT-TTA TT-TTA TT
9227228 GTCATTATTG
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
4 4 0.07
5 23 0.42
6 24 0.44
7 2 0.04
8 2 0.04
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.71
Consensus pattern (5 bp):
TTTTA
Found at i:9227185 original size:9 final size:9
Alignment explanation
Indices: 9227161--9227190 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
9227151 TAATGATGTT
9227161 TTTATTTTA
1 TTTATTTTA
9227170 TTTTATTTTA
1 -TTTATTTTA
9227180 TTTATTTTA
1 TTTATTTTA
9227189 TT
1 TT
9227191 CTTGACTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTATTTTA
Found at i:9231379 original size:45 final size:45
Alignment explanation
Indices: 9231317--9231720 Score: 155
Period size: 44 Copynumber: 9.0 Consensus size: 45
9231307 AAATATCATT
* * * *
9231317 TCCCTGAAGTTGTAGTGGAACAGGTTGAAGTTACCAATTCTTATC
1 TCCCTGAATTTCTAGTGGAGCAGGTTGAAGCTACCAATTCTTATC
* * * * *
9231362 TCCTTGAATTTCTAGTGGAGTAGATCGAAGCTACAAATCTCTTA--
1 TCCCTGAATTTCTAGTGGAGCAGGTTGAAGCTACCAAT-TCTTATC
* * * ** *
9231406 TCCCTGAAATTAC-ATTGGAGCAGATCAAAGCCA-CAATTCTTATC
1 TCCCTG-AATTTCTAGTGGAGCAGGTTGAAGCTACCAATTCTTATC
* * * * * ** *
9231450 TCCCTGAAGTTGTAGTAGAGCAGGATAAAAATACGCAAATCTTATC
1 TCCCTGAATTTCTAGTGGAGCAGGTTGAAGCTAC-CAATTCTTATC
* * * *
9231496 TCCCTAAAGTTGC-AGTGGAGCAAGTTGAAGTTACCAATTCTTATC
1 TCCCTGAA-TTTCTAGTGGAGCAGGTTGAAGCTACCAATTCTTATC
* * * * * * * *
9231541 TCCTTGAAATTCCAGCGGAGTAGATCGAAGCTA-CAAATCTCT-TC
1 TCCCTGAATTTCTAGTGGAGCAGGTTGAAGCTACCAATTCT-TATC
* * * * * * * *
9231585 TCCCTAAAATTAC-ATTGAAGCAGATCGACGCCA-CAATTCTTATC
1 TCCCT-GAATTTCTAGTGGAGCAGGTTGAAGCTACCAATTCTTATC
* * * ** * **
9231629 -CCCTTGAAGTTGC-AGTGGAGCAGGATAAAAATATACAAACCTTATC
1 TCCC-TGAA-TTTCTAGTGGAGCAGGTTGAAGCTA-CCAATTCTTATC
* * **
9231675 TCCCTGAAGTTATAGTGGAGCAGGTTGAAATTACCAATTCTTATC
1 TCCCTGAATTTCTAGTGGAGCAGGTTGAAGCTACCAATTCTTATC
9231720 T
1 T
9231721 ATTTGAAGTT
Statistics
Matches: 257, Mismatches: 84, Indels: 36
0.68 0.22 0.10
Matches are distributed among these distances:
42 5 0.02
43 12 0.05
44 89 0.35
45 80 0.31
46 67 0.26
47 4 0.02
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (45 bp):
TCCCTGAATTTCTAGTGGAGCAGGTTGAAGCTACCAATTCTTATC
Found at i:9231566 original size:179 final size:178
Alignment explanation
Indices: 9231258--9231789 Score: 701
Period size: 179 Copynumber: 3.0 Consensus size: 178
9231248 ATCGGTGAAA
* * * * *
9231258 CCACAAGTT-TTATCTCCCTGAAGTTGCAGTGGAGTA-GACTAAAGATAGCAAATATCATTTCCC
1 CCACAA-TTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGA-TAAAAATAGCAAATCTTATCTCCC
* * * *
9231321 TGAAGTTGTAGTGGAACAGGTTGAAGTTACCAATTCTTATCTCCTTGAATTTCTAGTGGAGTAGA
64 TGAAGTTGTAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAATTCCAGCGGAGTAGA
*
9231386 TCGAAGCTACAAATCTCTTATCCCTGAAATTACATTGGAGCAGATCAAAG
129 TCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCAAAG
* *
9231436 CCACAATTCTTATCTCCCTGAAGTTGTAGTAGAGCAGGATAAAAATACGCAAATCTTATCTCCCT
1 CCACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATA-GCAAATCTTATCTCCCT
* * *
9231501 AAAGTTGCAGTGGAGCAAGTTGAAGTTACCAATTCTTATCTCCTTGAAATTCCAGCGGAGTAGAT
65 GAAGTTGTAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAATTCCAGCGGAGTAGAT
* * * *
9231566 CGAAGCTACAAATCTCTTCTCCCTAAAATTACATTGAAGCAGATCGACG
130 CGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCAAAG
* *
9231615 CCACAATTCTTATC-CCCTTGAAGTTGCAGTGGAGCAGGATAAAAATATACAAACCTTATCTCCC
1 CCACAATTCTTATCTCCC-TGAAGTTGCAGTGGAGCAGGATAAAAATA-GCAAATCTTATCTCCC
* * ** * * *
9231679 TGAAGTTATAGTGGAGCAGGTTGAAATTACCAATTCTTATCTATTTGAAGTTGCAGCGGGGTAGA
64 TGAAGTTGTAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAATTCCAGCGGAGTAGA
* * * * *
9231744 TCAAAACTACAAGTTTCTTCTCCCTGAAATTACATTGGAGCGGATC
129 TCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATC
9231790 GAAACACCAA
Statistics
Matches: 309, Mismatches: 41, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
177 2 0.01
178 40 0.13
179 267 0.86
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (178 bp):
CCACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATAGCAAATCTTATCTCCCTG
AAGTTGTAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAATTCCAGCGGAGTAGATC
GAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCAAAG
Found at i:9231729 original size:91 final size:91
Alignment explanation
Indices: 9231267--9231734 Score: 321
Period size: 90 Copynumber: 5.2 Consensus size: 91
9231257 ACCACAAGTT
* * * * * * * * **
9231267 TTATCTCCCTGAAGTTGCAGTGGAGTA-GACTAAAGATA-GCAAATATCATTTCCCTGAAGTTGT
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGGA-TAAAAATATACAAATCTTATCTCCCTAAAGTTAC
*
9231330 AGTGGAACAGGTTGAAGTTACCAATTC
65 AGTGGAGCAGGTTGAAGTTACCAATTC
* * ** ** *
9231357 TTATCTCCTTGAA-TTTCTAGTGGAGTA-GAT-CGAAGCTACAAATCTCT-TATCCCTGAAA-TT
1 TTATCTCCTTGAAGTTGC-AGTGGAGCAGGATAAAAATATACAAATCT-TATCTCCCT-AAAGTT
* * ** **
9231417 ACATTGGAGCAGATCAAAGCCA-CAATTC
63 ACAGTGGAGCAGGTTGAAGTTACCAATTC
* * * ** *
9231445 TTATCTCCCTGAAGTTGTAGTAGAGCAGGATAAAAATACGCAAATCTTATCTCCCTAAAGTTGCA
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGGATAAAAATATACAAATCTTATCTCCCTAAAGTTACA
*
9231510 GTGGAGCAAGTTGAAGTTACCAATTC
66 GTGGAGCAGGTTGAAGTTACCAATTC
* * * * ** ** *
9231536 TTATCTCCTTGAAATTCCAGCGGAGTA-GAT-CGAAGCTACAAATCTCT-TCTCCCTAAAATTAC
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGGATAAAAATATACAAATCT-TATCTCCCTAAAGTTAC
* * * * * **
9231598 ATTGAAGCAGATCGACGCCA-CAATTC
65 AGTGGAGCAGGTTGAAGTTACCAATTC
* * * *
9231624 TTATCCCCTTGAAGTTGCAGTGGAGCAGGATAAAAATATACAAACCTTATCTCCCTGAAGTTATA
1 TTATCTCCTTGAAGTTGCAGTGGAGCAGGATAAAAATATACAAATCTTATCTCCCTAAAGTTACA
*
9231689 GTGGAGCAGGTTGAAATTACCAATTC
66 GTGGAGCAGGTTGAAGTTACCAATTC
**
9231715 TTATCTATTTGAAGTTGCAG
1 TTATCTCCTTGAAGTTGCAG
9231735 CGGGGTAGAT
Statistics
Matches: 275, Mismatches: 88, Indels: 29
0.70 0.22 0.07
Matches are distributed among these distances:
88 54 0.20
89 78 0.28
90 94 0.34
91 49 0.18
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (91 bp):
TTATCTCCTTGAAGTTGCAGTGGAGCAGGATAAAAATATACAAATCTTATCTCCCTAAAGTTACA
GTGGAGCAGGTTGAAGTTACCAATTC
Found at i:9233415 original size:6 final size:6
Alignment explanation
Indices: 9233404--9233463 Score: 54
Period size: 6 Copynumber: 10.5 Consensus size: 6
9233394 CTTAACTTCC
* * * *
9233404 ATTGTT ATTGTT ATTATT A-T-TT -TTGTT GTTGTT GTTGTT GTTGTT
1 ATTGTT ATTGTT ATTGTT ATTGTT ATTGTT ATTGTT ATTGTT ATTGTT
*
9233449 GTTGTT ATTGTT ATT
1 ATTGTT ATTGTT ATT
9233464 TTTTATGGTT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
4 3 0.06
5 3 0.06
6 43 0.88
ACGTcount: A:0.12, C:0.00, G:0.20, T:0.68
Consensus pattern (6 bp):
ATTGTT
Found at i:9233432 original size:3 final size:3
Alignment explanation
Indices: 9233426--9233460 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
9233416 ATTATTATTT
*
9233426 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTA TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
9233461 ATTTTTTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.00, G:0.29, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:9234555 original size:27 final size:27
Alignment explanation
Indices: 9234514--9234573 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
9234504 ATTATTATAT
* * *
9234514 TTAATTTTTTAAAATATTTTATATAACA
1 TTAATTTTATAAAATAATGTATATAA-A
*
9234542 TTAATTTTAT-AAATAATGTATATCAA
1 TTAATTTTATAAAATAATGTATATAAA
9234568 TTAATT
1 TTAATT
9234574 AAAATATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 7 0.25
27 12 0.43
28 9 0.32
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (27 bp):
TTAATTTTATAAAATAATGTATATAAA
Found at i:9239813 original size:27 final size:27
Alignment explanation
Indices: 9239783--9239861 Score: 158
Period size: 27 Copynumber: 2.9 Consensus size: 27
9239773 CCGCCATGAG
9239783 TTGCCGGTTAGCAGTACCGATGAACAA
1 TTGCCGGTTAGCAGTACCGATGAACAA
9239810 TTGCCGGTTAGCAGTACCGATGAACAA
1 TTGCCGGTTAGCAGTACCGATGAACAA
9239837 TTGCCGGTTAGCAGTACCGATGAAC
1 TTGCCGGTTAGCAGTACCGATGAAC
9239862 TATCTAGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (27 bp):
TTGCCGGTTAGCAGTACCGATGAACAA
Found at i:9241801 original size:18 final size:20
Alignment explanation
Indices: 9241762--9241886 Score: 80
Period size: 18 Copynumber: 6.4 Consensus size: 20
9241752 TTAAAAGAGC
* *
9241762 ATAAAAAA-TATAGAAAGTT
1 ATAAAAAATTACAGAAAATT
9241781 ATAAAAAATTACA-AAAA-T
1 ATAAAAAATTACAGAAAATT
*
9241799 ATAAGAAATTACAGAAAATT
1 ATAAAAAATTACAGAAAATT
* * * * *
9241819 ATTAAAAATAATAGGAATTT
1 ATAAAAAATTACAGAAAATT
* * * *
9241839 ACAAAAAAATTATATAAAAATG
1 A-TAAAAAATTACA-GAAAATT
*
9241861 ATATAAAATTAC-GAAAA-T
1 ATAAAAAATTACAGAAAATT
9241879 ATAAAAAA
1 ATAAAAAA
9241887 AAACTATAAA
Statistics
Matches: 79, Mismatches: 22, Indels: 11
0.71 0.20 0.10
Matches are distributed among these distances:
18 20 0.25
19 19 0.24
20 19 0.24
21 17 0.22
22 4 0.05
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (20 bp):
ATAAAAAATTACAGAAAATT
Found at i:9263269 original size:54 final size:54
Alignment explanation
Indices: 9263211--9263373 Score: 217
Period size: 54 Copynumber: 3.1 Consensus size: 54
9263201 TTATAGCTAA
* *
9263211 CACCCCTTTTATCAATTTTTAAAAAAAATTAGGTTTTGAACACCCCATGGCTGG
1 CACCCCTTTTATCAATTTTTAAAAAAAATTAGGTTTTGGACACCCCATGGCCGG
* * * * **
9263265 CACCCCTTTTATCAA-TTTAAAAAGAAAATTGGGTTTTGGACACCCGATGACCAA
1 CACCCCTTTTATCAATTTTTAAAA-AAAATTAGGTTTTGGACACCCCATGGCCGG
9263319 CACCCCTTTTATCAATTTTT--AAAAAA-TAGGTTTTGGACACCCCATGGCCGG
1 CACCCCTTTTATCAATTTTTAAAAAAAATTAGGTTTTGGACACCCCATGGCCGG
9263370 CACC
1 CACC
9263374 TCCATTAAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
51 24 0.26
52 4 0.04
53 9 0.10
54 53 0.57
55 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (54 bp):
CACCCCTTTTATCAATTTTTAAAAAAAATTAGGTTTTGGACACCCCATGGCCGG
Found at i:9265975 original size:16 final size:16
Alignment explanation
Indices: 9265956--9266012 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
9265946 AATTTTAAAA
9265956 AAAAACCATTTATATT
1 AAAAACCATTTATATT
* *
9265972 AAAAA-CATGTTAAAAT
1 AAAAACCAT-TTATATT
9265988 AACTTAAACCATTTATATT
1 AA---AAACCATTTATATT
9266007 AAAAAC
1 AAAAAC
9266013 ATGTTAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 3 0.09
16 16 0.50
19 10 0.31
20 3 0.09
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (16 bp):
AAAAACCATTTATATT
Found at i:9265998 original size:35 final size:35
Alignment explanation
Indices: 9265958--9266038 Score: 144
Period size: 35 Copynumber: 2.3 Consensus size: 35
9265948 TTTTAAAAAA
9265958 AAACCATTTATATTAAAAACATGTTAAAATAACTT
1 AAACCATTTATATTAAAAACATGTTAAAATAACTT
9265993 AAACCATTTATATTAAAAACATGTTAAAATAACTT
1 AAACCATTTATATTAAAAACATGTTAAAATAACTT
* *
9266028 ACACCTTTTAT
1 AAACCATTTAT
9266039 CTAGGGAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (35 bp):
AAACCATTTATATTAAAAACATGTTAAAATAACTT
Found at i:9266890 original size:22 final size:22
Alignment explanation
Indices: 9266862--9266906 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9266852 ACAGATAAAT
* *
9266862 AATTGATTTATAGAGACAAAAA
1 AATTGATATATAAAGACAAAAA
*
9266884 AATTGATATATAAATACAAAAA
1 AATTGATATATAAAGACAAAAA
9266906 A
1 A
9266907 TAACATGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (22 bp):
AATTGATATATAAAGACAAAAA
Found at i:9267963 original size:37 final size:36
Alignment explanation
Indices: 9267870--9268047 Score: 140
Period size: 38 Copynumber: 4.8 Consensus size: 36
9267860 ATTAAAAATC
* * * *
9267870 AAATAAGAACAGATAAATTTTGAAGAAAGAGTTTTAAA
1 AAATAAAAACTGATAAATTTT-AAAAAATA-TTTTAAA
* * *
9267908 AAATAAAAACTAAAAAATTCTAAAAAATATTTTAAA
1 AAATAAAAACTGATAAATTTTAAAAAATATTTTAAA
* * *
9267944 AATTTAAAAATTGATAAATTTTATAAAAATATTAATAAA
1 AA-ATAAAAACTGATAAATTTTA-AAAAATATT-TTAAA
* * *
9267983 AAATAAGAACTGATAATTTTTGAAAACATATTTTAAA
1 AAATAAAAACTGATAAATTTT-AAAAAATATTTTAAA
** * *
9268020 AAATATGATCTGATAAAATTTTCAAAAA
1 AAATAAAAACTGAT-AAATTTTAAAAAA
9268048 GATTAAAAAT
Statistics
Matches: 111, Mismatches: 24, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
36 9 0.08
37 41 0.37
38 54 0.49
39 7 0.06
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.32
Consensus pattern (36 bp):
AAATAAAAACTGATAAATTTTAAAAAATATTTTAAA
Found at i:9267997 original size:38 final size:36
Alignment explanation
Indices: 9267855--9268079 Score: 137
Period size: 38 Copynumber: 5.9 Consensus size: 36
9267845 ATTTTGAAAT
* *
9267855 AAAATATTAAAAATCAAATAAGAACAGATAAATTTTGAA
1 AAAATATTATAAA--AAATAAGAACTGATAAATTTT-AA
* * * * * * *
9267894 GAAAGAGTTTTAAAAAATAAAAACTAAAAAATTCTAA
1 AAAATA-TTATAAAAAATAAGAACTGATAAATTTTAA
* * * *
9267931 AAAATATTTTAAAAATTTAAAAATTGATAAATTTTATA
1 AAAATATTATAAAAA-ATAAGAACTGATAAATTTTA-A
*
9267969 AAAATATTAATAAAAAATAAGAACTGATAATTTTTGAA
1 AAAATATT-ATAAAAAATAAGAACTGATAAATTTT-AA
* * * * *
9268007 AACATATTTTAAAAAATATGATCTGATAAAATTTTCA
1 AAAATATTATAAAAAATAAGAACTGAT-AAATTTTAA
* * *
9268044 AAAAGATTAAAAATAAAATATGAA-TGTATAAATTTT
1 AAAATATT-ATAA-AAAATAAGAACTG-ATAAATTTT
9268080 CGAACAAATT
Statistics
Matches: 145, Mismatches: 32, Indels: 19
0.74 0.16 0.10
Matches are distributed among these distances:
36 9 0.06
37 44 0.30
38 65 0.45
39 22 0.15
40 5 0.03
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.32
Consensus pattern (36 bp):
AAAATATTATAAAAAATAAGAACTGATAAATTTTAA
Found at i:9272697 original size:30 final size:30
Alignment explanation
Indices: 9272661--9272725 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
9272651 CAACTTAACA
9272661 AACAAATGCCTCTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
*
9272691 AACAAATGCCTTTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
9272721 AACAA
1 AACAA
9272726 TAAAATAAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.23
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:9272841 original size:22 final size:21
Alignment explanation
Indices: 9272806--9272848 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
9272796 AAAATAGGGA
* *
9272806 AAAAAACAAGAAAATAACATT
1 AAAAAACAAAAAAAGAACATT
9272827 AAAAAACAAAAAAAAGAACATT
1 AAAAAAC-AAAAAAAGAACATT
9272849 TTTTTGTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.74, C:0.09, G:0.05, T:0.12
Consensus pattern (21 bp):
AAAAAACAAAAAAAGAACATT
Found at i:9275924 original size:18 final size:18
Alignment explanation
Indices: 9275891--9275927 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9275881 ATCTTTTTAT
9275891 CCTTCATATTTTTATATA
1 CCTTCATATTTTTATATA
9275909 CCTT-ATATTTTATATATA
1 CCTTCATATTTT-TATATA
9275927 C
1 C
9275928 GTATTTATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.54
Consensus pattern (18 bp):
CCTTCATATTTTTATATA
Found at i:9276010 original size:2 final size:2
Alignment explanation
Indices: 9276003--9276028 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9275993 TTTTACATTC
9276003 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9276029 GCATACATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9287442 original size:44 final size:44
Alignment explanation
Indices: 9287369--9287724 Score: 252
Period size: 44 Copynumber: 8.0 Consensus size: 44
9287359 TGAAAAGTAG
* * * * * * *
9287369 CAGATCATGTCTTCCTATATTGGTAGCGAAGTGGATCGAATATA
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
**
9287413 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATAAAAGAAAA
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG-AAA
*** * * *
9287458 CAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAA
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AA
* *
9287502 TAGATCTTGCCTTCCCATACTGGTGGCGAAGCT-GATCGAAGGAAAAA
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAG-TAGATCGAA-G--AAA
* *** * * *
9287549 GCAAATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAA
1 -CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AA
* * **
9287594 CAGATCTGGTCCTCCCATACTGGTGGCGAAACAGATCGAAGAAA
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
* * *** * *
9287638 GCAGGTATTGTCTTCATGTACTGG-CGTGAAGTAGATCGAAGAAA
1 -CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
* * *
9287682 GTAGATCTTGTCTTCCCCTACTGGTGGTGAAGTAGATCGAAGA
1 -CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
9287725 TACAAGTCTT
Statistics
Matches: 238, Mismatches: 61, Indels: 25
0.73 0.19 0.08
Matches are distributed among these distances:
43 1 0.00
44 121 0.51
45 81 0.34
46 4 0.02
47 13 0.05
48 18 0.08
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
Found at i:9287719 original size:89 final size:89
Alignment explanation
Indices: 9287414--9287724 Score: 428
Period size: 89 Copynumber: 3.5 Consensus size: 89
9287404 TCGAATATAC
** *
9287414 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATAAAAGAAAACAGATCTTGTCTTCATGTACT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
9287479 GGCGTGAAGTAGATCAAAGATAAT
66 GGCGTGAAGTAGATCAAAGATAAT
* *
9287503 AGATCTTGCCTTCCCATACTGGTGGCGAAGCT-GATCGAAGGAAAAAGCAAATCTTGTCTTCATG
1 AGATCTTGTCTTCCCATACTGGTGGCGAAG-TAGATCGAA-G--AAAGCAGATCTTGTCTTCATG
*
9287567 TACTGGCGTGAAGTAGATCAAAGATAAC
62 TACTGGCGTGAAGTAGATCAAAGATAAT
* * ** * *
9287595 AGATCTGGTCCTCCCATACTGGTGGCGAAACAGATCGAAGAAAGCAGGTATTGTCTTCATGTACT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
*
9287660 GGCGTGAAGTAGATCGAAGA-AAGT
66 GGCGTGAAGTAGATCAAAGATAA-T
* *
9287684 AGATCTTGTCTTCCCCTACTGGTGGTGAAGTAGATCGAAGA
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
9287725 TACAAGTCTT
Statistics
Matches: 194, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
88 2 0.01
89 110 0.57
90 2 0.01
91 1 0.01
92 79 0.41
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (89 bp):
AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
GGCGTGAAGTAGATCAAAGATAAT
Found at i:9289494 original size:18 final size:18
Alignment explanation
Indices: 9289461--9289497 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9289451 ATCTTTTTAT
9289461 CCTTCATATTTTTATATA
1 CCTTCATATTTTTATATA
9289479 CCTT-ATATTTTATATATA
1 CCTTCATATTTT-TATATA
9289497 C
1 C
9289498 GTATTTATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.54
Consensus pattern (18 bp):
CCTTCATATTTTTATATA
Found at i:9291439 original size:23 final size:23
Alignment explanation
Indices: 9291393--9291442 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
9291383 GTTTTAAGTT
*
9291393 TTTATATGTATTATTATTTGAAA
1 TTTATATGTATCATTATTTGAAA
9291416 TTTACTATGTATCATTATTT-AAA
1 TTTA-TATGTATCATTATTTGAAA
9291439 TTTA
1 TTTA
9291443 ACATATTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (23 bp):
TTTATATGTATCATTATTTGAAA
Found at i:9302511 original size:61 final size:61
Alignment explanation
Indices: 9302422--9302545 Score: 160
Period size: 61 Copynumber: 2.0 Consensus size: 61
9302412 TTCAAGAACC
* * ** * *
9302422 TTGCGATCGGACCACTTCACTTTATATTAAAGCTAGGTACCCAATTTTGGTAAAAGAAAAT
1 TTGCGACCGGAACACTTCACTTTATATTAAAGCTAGCCAACCAAATTTGGTAAAAGAAAAT
* *
9302483 TTGCGACCGGAACACTTCA-TATTGTATTAAAGGTAGCCAACCAAATTTGGTAAAAGAAAAT
1 TTGCGACCGGAACACTTCACT-TTATATTAAAGCTAGCCAACCAAATTTGGTAAAAGAAAAT
9302544 TT
1 TT
9302546 TAAGGTGGAG
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
60 1 0.02
61 53 0.98
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (61 bp):
TTGCGACCGGAACACTTCACTTTATATTAAAGCTAGCCAACCAAATTTGGTAAAAGAAAAT
Found at i:9306175 original size:19 final size:20
Alignment explanation
Indices: 9306147--9306197 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 20
9306137 AACTTGAGTT
9306147 AAATTAAAAATTATCA-ATTAA
1 AAATT-AAAATTAT-ATATTAA
* *
9306168 AGA-TAAAAATATATATTAA
1 AAATTAAAATTATATATTAA
9306187 AAATTAAAATT
1 AAATTAAAATT
9306198 CAAATAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
18 1 0.04
19 14 0.58
20 7 0.29
21 2 0.08
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAATTAAAATTATATATTAA
Found at i:9312438 original size:18 final size:18
Alignment explanation
Indices: 9312399--9312440 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
9312389 TAAGTTGTTT
* *
9312399 ATTTATTTTTCTTATTTT
1 ATTTATTTTTCTTATCTC
9312417 ATTTATTATTT-TTATCTC
1 ATTTATT-TTTCTTATCTC
9312435 ATTTAT
1 ATTTAT
9312441 ATGTTTTACG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTATTTTTCTTATCTC
Found at i:9312710 original size:13 final size:13
Alignment explanation
Indices: 9312692--9312727 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
9312682 GTCGGGGATG
*
9312692 TTTTGACAATAAA
1 TTTTGAAAATAAA
9312705 TTTTGAAAATAAA
1 TTTTGAAAATAAA
*
9312718 TTTTTAAAAT
1 TTTTGAAAAT
9312728 TAATAAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (13 bp):
TTTTGAAAATAAA
Found at i:9324001 original size:102 final size:102
Alignment explanation
Indices: 9323825--9324839 Score: 1994
Period size: 102 Copynumber: 10.0 Consensus size: 102
9323815 TGTTCAATTC
* * * *
9323825 GATGGTTTGCAAGACGAATATCCAAATACTCATTTGGCTAATTATTTAGAAATCTACGATACTTT
1 GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
9323890 CAAAATTAATGGCGTCACTGACGACACCATTCAGTTT
66 CAAAATTAATGGCGTCACTGACGACACCATTCAGTTT
9323927 GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
1 GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
9323992 CAAAATTAATGGCGTCACTGACGACACCATTCAGTTT
66 CAAAATTAATGGCGTCACTGACGACACCATTCAGTTT
9324029 GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
1 GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
9324094 CAAAATTAATGGCGTCACTGACGACACCATTCAGTTT
66 CAAAATTAATGGCGTCACTGACGACACCATTCAGTTT
9324131 GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
1 GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
9324196 CAAAATTAATGGCGTCACTGACGACACCATTCAGTTT
66 CAAAATTAATGGCGTCACTGACGACACCATTCAGTTT
9324233 GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
1 GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
9324298 CAAAATTAATGGCGTCACTGACGACACCATTCAGTTT
66 CAAAATTAATGGCGTCACTGACGACACCATTCAGTTT
9324335 GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
1 GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
9324400 CAAAATTAATGGCGTCACTGACGACACCATTCAGTTT
66 CAAAATTAATGGCGTCACTGACGACACCATTCAGTTT
9324437 GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
1 GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
9324502 CAAAATTAATGGCGTCACTGACGACACCATTCAGTTT
66 CAAAATTAATGGCGTCACTGACGACACCATTCAGTTT
9324539 GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
1 GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
9324604 CAAAATTAATGGCGTCACTGACGACACCATTCAGTTT
66 CAAAATTAATGGCGTCACTGACGACACCATTCAGTTT
9324641 GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
1 GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
9324706 CAAAATTAATGGCGTCACTGACGACACCATTCAGTTT
66 CAAAATTAATGGCGTCACTGACGACACCATTCAGTTT
9324743 GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
1 GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
9324808 CAAAATTAATGGCGTCACTGACGACACCATTC
66 CAAAATTAATGGCGTCACTGACGACACCATTC
9324840 GCCTACAGTT
Statistics
Matches: 909, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 909 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (102 bp):
GATGGTTTGCAAGACGAAGATCCAAATACTCATTTGGCTAATTTTTTAGAAATCTATGATAATTT
CAAAATTAATGGCGTCACTGACGACACCATTCAGTTT
Found at i:9327904 original size:12 final size:12
Alignment explanation
Indices: 9327889--9327989 Score: 66
Period size: 12 Copynumber: 8.2 Consensus size: 12
9327879 TACCCTTTTC
9327889 TTTATTTTATTA
1 TTTATTTTATTA
9327901 TTTA-TTTATTTA
1 TTTATTTTA-TTA
9327913 TTTATTATTTATTA
1 TTTA-T-TTTATTA
9327927 TATTA-TTTATTA
1 T-TTATTTTATTA
*
9327939 -TTATTTTACTGA
1 TTTATTTTA-TTA
* * *
9327951 TTTGTTTGATGA
1 TTTATTTTATTA
9327963 TTTA-TTTATTTA
1 TTTATTTTA-TTA
*
9327975 TTTTGTTTTATTA
1 -TTTATTTTATTA
9327988 TT
1 TT
9327990 CTTATGCTTA
Statistics
Matches: 71, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
10 3 0.04
11 11 0.15
12 30 0.42
13 12 0.17
14 8 0.11
15 7 0.10
ACGTcount: A:0.24, C:0.01, G:0.05, T:0.70
Consensus pattern (12 bp):
TTTATTTTATTA
Found at i:9327907 original size:4 final size:4
Alignment explanation
Indices: 9327889--9327977 Score: 64
Period size: 4 Copynumber: 22.8 Consensus size: 4
9327879 TACCCTTTTC
9327889 TTTA TTT- TATTA TTTA TTTA TTTA TTTA -TTA TTTA -TTA TATTA TTTA
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA
* * * *
9327936 -TTA -TTA TTTTA CTGA TTTG TTTGA -TGA TTTA TTTA TTTA TTT
1 TTTA TTTA -TTTA TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TTT
9327978 TGTTTTATTA
Statistics
Matches: 68, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
3 14 0.21
4 46 0.68
5 8 0.12
ACGTcount: A:0.25, C:0.01, G:0.04, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:9328034 original size:19 final size:20
Alignment explanation
Indices: 9328012--9328054 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
9328002 TATTAATTTT
9328012 ATTTTAATT-TATTTCTTTC
1 ATTTTAATTATATTTCTTTC
* *
9328031 A-TTTAGTTATATTTCTTTT
1 ATTTTAATTATATTTCTTTC
9328050 ATTTT
1 ATTTT
9328055 TAGTATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 6 0.30
19 11 0.55
20 3 0.15
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (20 bp):
ATTTTAATTATATTTCTTTC
Found at i:9328160 original size:18 final size:18
Alignment explanation
Indices: 9328120--9328160 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
9328110 AGTTTATTTC
*
9328120 TTTTCTTTTTCTTTTTAT
1 TTTTATTTTTCTTTTTAT
* *
9328138 CTTTATTTTTCTTTTTGT
1 TTTTATTTTTCTTTTTAT
9328156 TTTTA
1 TTTTA
9328161 ATTGCCTTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.07, C:0.10, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTATTTTTCTTTTTAT
Found at i:9331579 original size:14 final size:14
Alignment explanation
Indices: 9331562--9331591 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9331552 TTCTTTAGAA
9331562 AATTTTCTCTCTAC
1 AATTTTCTCTCTAC
9331576 AATTTTCTCTCTAC
1 AATTTTCTCTCTAC
9331590 AA
1 AA
9331592 ATTCCATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTTTCTCTCTAC
Found at i:9331766 original size:61 final size:58
Alignment explanation
Indices: 9331659--9331774 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 58
9331649 ATCACTTCAA
* * *
9331659 TATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAAAATTAAATC
*
9331717 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAAATTTAAAATTAA
1 TATTAAATTAATAGAATACTTA--T-CAAGATAAATATTAAATTAAATTTAAAATTAA
9331775 GATAATCACT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 20 0.39
60 1 0.02
61 30 0.59
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAAAATTAAATC
Found at i:9331846 original size:72 final size:71
Alignment explanation
Indices: 9331717--9331852 Score: 161
Period size: 72 Copynumber: 1.9 Consensus size: 71
9331707 ATATTAAATC
* * *
9331717 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAAATTTAAAATTAAGATAATC
1 TATTAAATTAATAAAATATTTA-CTACAAGATAAATATTAAATTAAATTAAAAATTAAAATAATC
9331782 ACTTTAA
65 ACTTTAA
* *
9331789 TATTGAATTAATAAAATA-TTA-TA-AAGATAAATATTTAATTTAATATTAAATATATTAAAATA
1 TATTAAATTAATAAAATATTTACTACAAGATAAATA-TTAAATTAA-ATTAAA-A-ATTAAAATA
9331851 AT
62 AT
9331853 ATTATTTTCA
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
68 10 0.18
69 10 0.18
70 5 0.09
71 4 0.07
72 26 0.47
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (71 bp):
TATTAAATTAATAAAATATTTACTACAAGATAAATATTAAATTAAATTAAAAATTAAAATAATCA
CTTTAA
Found at i:9331852 original size:20 final size:19
Alignment explanation
Indices: 9331816--9331856 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
9331806 ATTATAAAGA
**
9331816 TAAATATTTAATTTAATAT
1 TAAATATTTAAAATAATAT
9331835 TAAATATATTAAAATAATAT
1 TAAATAT-TTAAAATAATAT
9331855 TA
1 TA
9331857 TTTTCAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAAATATTTAAAATAATAT
Found at i:9334944 original size:41 final size:41
Alignment explanation
Indices: 9334869--9334964 Score: 140
Period size: 41 Copynumber: 2.4 Consensus size: 41
9334859 TATGATTAGA
* * *
9334869 ACTAAGTGTGCG-AATTAAATGATGAGGTTGAATAATGAGC
1 ACTAAGTGTGCGAAATTAAATAATGAGGTTAAATAACGAGC
* *
9334909 ACTAAGTGTGCGAAATTAAATAATGATGTTAAATAACGGGC
1 ACTAAGTGTGCGAAATTAAATAATGAGGTTAAATAACGAGC
9334950 ACTAAGTGTGCGAAA
1 ACTAAGTGTGCGAAA
9334965 CCGAGATCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 12 0.24
41 38 0.76
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.26
Consensus pattern (41 bp):
ACTAAGTGTGCGAAATTAAATAATGAGGTTAAATAACGAGC
Found at i:9337447 original size:39 final size:38
Alignment explanation
Indices: 9337397--9337490 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 38
9337387 TAATATTTAT
* * **
9337397 AATTACCATAATTATAATAATGTTTGA-CTGAAAAATTAC
1 AATTACAATAATTATAATAATATTCAATC-G-AAAATTAC
* *
9337436 AATTACAATAATTATAATAATATTCAATCGTAAATTAT
1 AATTACAATAATTATAATAATATTCAATCGAAAATTAC
9337474 AATTACAATAATTATAA
1 AATTACAATAATTATAA
9337491 CAAGGATTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 23 0.48
39 24 0.50
40 1 0.02
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (38 bp):
AATTACAATAATTATAATAATATTCAATCGAAAATTAC
Found at i:9338892 original size:49 final size:48
Alignment explanation
Indices: 9338802--9338898 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 48
9338792 TTTCTTTGCT
* * *
9338802 TAAAAACGCCTAAGTCATCCTAACTCGCAATGATAACGGATTCAACAG
1 TAAAAACACCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAG
*
9338850 TAAAAACACCTAAGTCAGCTTAATCTCGCAATGATAAAGGATTCAACAG
1 TAAAAACACCTAAGTCAGCCTAA-CTCGCAATGATAAAGGATTCAACAG
9338899 AATTCCCTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 20 0.45
49 24 0.55
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.22
Consensus pattern (48 bp):
TAAAAACACCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAG
Found at i:9339131 original size:19 final size:19
Alignment explanation
Indices: 9339107--9339163 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
9339097 TAAAAGCTGT
9339107 ATACAATTAGAACTCTAAG
1 ATACAATTAGAACTCTAAG
*
9339126 ATACAATTAGAA-GCT--G
1 ATACAATTAGAACTCTAAG
9339142 TATACAATTAGAACTCTAAG
1 -ATACAATTAGAACTCTAAG
9339162 AT
1 AT
9339164 TACATAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.03
17 12 0.38
18 4 0.12
19 14 0.44
20 1 0.03
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (19 bp):
ATACAATTAGAACTCTAAG
Found at i:9339141 original size:36 final size:36
Alignment explanation
Indices: 9339094--9339163 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
9339084 CAAGGGCTAT
9339094 AATTAAAAGCTGTATACAATTAGAACTCTAAGATAC
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGATAC
*
9339130 AATTAGAAGCTGTATACAATTAGAACTCTAAGAT
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGAT
9339164 TACATAATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.29
Consensus pattern (36 bp):
AATTAAAAGCTGTATACAATTAGAACTCTAAGATAC
Found at i:9339148 original size:17 final size:17
Alignment explanation
Indices: 9339094--9339154 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
9339084 CAAGGGCTAT
*
9339094 AATTAAAAGCTGTATAC
1 AATTAGAAGCTGTATAC
*
9339111 AATTAGAA-CTCTAAGATAC
1 AATTAGAAGCTGT---ATAC
9339130 AATTAGAAGCTGTATAC
1 AATTAGAAGCTGTATAC
9339147 AATTAGAA
1 AATTAGAA
9339155 CTCTAAGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 3 0.08
17 19 0.51
19 12 0.32
20 3 0.08
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.28
Consensus pattern (17 bp):
AATTAGAAGCTGTATAC
Found at i:9344223 original size:17 final size:17
Alignment explanation
Indices: 9344201--9344264 Score: 76
Period size: 17 Copynumber: 3.6 Consensus size: 17
9344191 CATCAAGGGC
*
9344201 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
9344218 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
9344237 TACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
9344254 TACAATTAGAA
1 TACAATTAGAA
9344265 CTCTAAGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 3 0.08
17 22 0.55
19 12 0.30
20 3 0.08
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:9344241 original size:19 final size:19
Alignment explanation
Indices: 9344217--9344273 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
9344207 TAAAAGCTGT
9344217 ATACAATTAGAACTCTAAG
1 ATACAATTAGAACTCTAAG
*
9344236 ATACAATTAGAA-GCT--G
1 ATACAATTAGAACTCTAAG
9344252 TATACAATTAGAACTCTAAG
1 -ATACAATTAGAACTCTAAG
9344272 AT
1 AT
9344274 TACATAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.03
17 12 0.38
18 4 0.12
19 14 0.44
20 1 0.03
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (19 bp):
ATACAATTAGAACTCTAAG
Found at i:9344250 original size:36 final size:36
Alignment explanation
Indices: 9344201--9344273 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
9344191 CATCAAGGGC
9344201 TACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
1 TACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
*
9344237 TACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 TACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
9344273 T
1 T
9344274 TACATAATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (36 bp):
TACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
Found at i:9346461 original size:44 final size:44
Alignment explanation
Indices: 9346387--9346474 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
9346377 TCACCTCGTG
* *
9346387 AAAATTAAGTTTTGAGTCTCGTACCTAATTTCAAACTCAATTAC
1 AAAAGTAAGTTTTGAGTCTCCTACCTAATTTCAAACTCAATTAC
9346431 AAAAGTAAGTTTTGAGTCTCCTATCC-AATTTCAAACTCAATTAC
1 AAAAGTAAGTTTTGAGTCTCCTA-CCTAATTTCAAACTCAATTAC
9346475 TTATTTACGA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 39 0.95
45 2 0.05
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.35
Consensus pattern (44 bp):
AAAAGTAAGTTTTGAGTCTCCTACCTAATTTCAAACTCAATTAC
Found at i:9346807 original size:14 final size:14
Alignment explanation
Indices: 9346770--9346809 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
9346760 ACTAATAATC
9346770 TTTTTTAATATATT
1 TTTTTTAATATATT
* *
9346784 TTTATAAATATATT
1 TTTTTTAATATATT
9346798 TTTTTTAATATA
1 TTTTTTAATATA
9346810 AAATGTGATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTTTTAATATATT
Found at i:9351642 original size:17 final size:17
Alignment explanation
Indices: 9351620--9351652 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9351610 TTTTGAATTA
9351620 GTGAATTCTGTGATTTT
1 GTGAATTCTGTGATTTT
*
9351637 GTGAATTTTGTGATTT
1 GTGAATTCTGTGATTT
9351653 AAAAAGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.03, G:0.24, T:0.55
Consensus pattern (17 bp):
GTGAATTCTGTGATTTT
Found at i:9352451 original size:46 final size:46
Alignment explanation
Indices: 9352398--9352583 Score: 300
Period size: 46 Copynumber: 4.0 Consensus size: 46
9352388 CTATGGTAAA
* *
9352398 TTGTGAAAAGTAGGTATGGTACTTCGGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAG
*
9352444 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAG
* * *
9352490 TTGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAATCATACTGAG
1 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAG
* *
9352536 TTGTGAAAAGTAGGTATGGTATTTTAGTGAAGGAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAG
9352582 TT
1 TT
9352584 AAAGCATTGT
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 130 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAG
Found at i:9353703 original size:389 final size:389
Alignment explanation
Indices: 9352986--9353765 Score: 1560
Period size: 389 Copynumber: 2.0 Consensus size: 389
9352976 TTCCGTATAA
9352986 GACCATATTCGGGATATGGCATCGGTGTGATATATGCTTCCATGTAAGACCATGGCTAGGCTATG
1 GACCATATTCGGGATATGGCATCGGTGTGATATATGCTTCCATGTAAGACCATGGCTAGGCTATG
9353051 GCTACGGTGTGTGATATGTGATTATGTGCAATACCATAGTTATACTATGGCATTTTAAAAAACGA
66 GCTACGGTGTGTGATATGTGATTATGTGCAATACCATAGTTATACTATGGCATTTTAAAAAACGA
9353116 AGTACTCAATTCCGTAACCTTTCCTAAATTGATTAAGAAAAGGAAGAATTAGTGAAATTATATAT
131 AGTACTCAATTCCGTAACCTTTCCTAAATTGATTAAGAAAAGGAAGAATTAGTGAAATTATATAT
9353181 TGTATAATTGTTAAAAGATGTTCGGTAAGAATTATTTTCTATGCCTATGAACTTACGAAGCTTAC
196 TGTATAATTGTTAAAAGATGTTCGGTAAGAATTATTTTCTATGCCTATGAACTTACGAAGCTTAC
9353246 ATAAGCTTACTCTTGTGTGATTAATGTTCTTTGTAGATTGATGTGAAATCGGTGGATCGGATCAA
261 ATAAGCTTACTCTTGTGTGATTAATGTTCTTTGTAGATTGATGTGAAATCGGTGGATCGGATCAA
9353311 CACATCAGGGAAAACTATCCAGATTACTTCGGTAAATTTTATTGTGCATCTTAAGGTTTATATG
326 CACATCAGGGAAAACTATCCAGATTACTTCGGTAAATTTTATTGTGCATCTTAAGGTTTATATG
9353375 GACCATATTCGGGATATGGCATCGGTGTGATATATGCTTCCATGTAAGACCATGGCTAGGCTATG
1 GACCATATTCGGGATATGGCATCGGTGTGATATATGCTTCCATGTAAGACCATGGCTAGGCTATG
9353440 GCTACGGTGTGTGATATGTGATTATGTGCAATACCATAGTTATACTATGGCATTTTAAAAAACGA
66 GCTACGGTGTGTGATATGTGATTATGTGCAATACCATAGTTATACTATGGCATTTTAAAAAACGA
9353505 AGTACTCAATTCCGTAACCTTTCCTAAATTGATTAAGAAAAGGAAGAATTAGTGAAATTATATAT
131 AGTACTCAATTCCGTAACCTTTCCTAAATTGATTAAGAAAAGGAAGAATTAGTGAAATTATATAT
9353570 TGTATAATTGTTAAAAGATGTTCGGTAAGAATTATTTTCTATGCCTATGAACTTACGAAGCTTAC
196 TGTATAATTGTTAAAAGATGTTCGGTAAGAATTATTTTCTATGCCTATGAACTTACGAAGCTTAC
9353635 ATAAGCTTACTCTTGTGTGATTAATGTTCTTTGTAGATTGATGTGAAATCGGTGGATCGGATCAA
261 ATAAGCTTACTCTTGTGTGATTAATGTTCTTTGTAGATTGATGTGAAATCGGTGGATCGGATCAA
9353700 CACATCAGGGAAAACTATCCAGATTACTTCGGTAAATTTTATTGTGCATCTTAAGGTTTATATG
326 CACATCAGGGAAAACTATCCAGATTACTTCGGTAAATTTTATTGTGCATCTTAAGGTTTATATG
9353764 GA
1 GA
9353766 ATGTATAGGG
Statistics
Matches: 391, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
389 391 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (389 bp):
GACCATATTCGGGATATGGCATCGGTGTGATATATGCTTCCATGTAAGACCATGGCTAGGCTATG
GCTACGGTGTGTGATATGTGATTATGTGCAATACCATAGTTATACTATGGCATTTTAAAAAACGA
AGTACTCAATTCCGTAACCTTTCCTAAATTGATTAAGAAAAGGAAGAATTAGTGAAATTATATAT
TGTATAATTGTTAAAAGATGTTCGGTAAGAATTATTTTCTATGCCTATGAACTTACGAAGCTTAC
ATAAGCTTACTCTTGTGTGATTAATGTTCTTTGTAGATTGATGTGAAATCGGTGGATCGGATCAA
CACATCAGGGAAAACTATCCAGATTACTTCGGTAAATTTTATTGTGCATCTTAAGGTTTATATG
Found at i:9357923 original size:41 final size:41
Alignment explanation
Indices: 9357878--9358039 Score: 254
Period size: 41 Copynumber: 4.0 Consensus size: 41
9357868 AAATTATTCA
*
9357878 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCG
* *
9357919 GACTATACGTCTAGCAGGCTAAATGCCGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCG
9357960 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCAG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATC-G
* * *
9358002 G-CTACAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAAT
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAAT
9358040 TAAACTATAA
Statistics
Matches: 114, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
41 112 0.98
42 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (41 bp):
GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCG
Found at i:9361151 original size:3 final size:3
Alignment explanation
Indices: 9361143--9361183 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
9361133 TTATCATCTT
*
9361143 TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA CTTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA T
9361184 ATATATACGC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9377322 original size:20 final size:22
Alignment explanation
Indices: 9377283--9377323 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
9377273 AGCCCTAACA
9377283 TTTAATATCGTAAGCTAAATTT
1 TTTAATATCGTAAGCTAAATTT
*
9377305 TTTAA-ATCGTGA-CTAAATT
1 TTTAATATCGTAAGCTAAATT
9377324 GATAGAATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (22 bp):
TTTAATATCGTAAGCTAAATTT
Found at i:9377413 original size:12 final size:12
Alignment explanation
Indices: 9377398--9377422 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9377388 ACGAAAAAAC
9377398 ATTAATATTGTG
1 ATTAATATTGTG
9377410 ATTAATATTGTG
1 ATTAATATTGTG
9377422 A
1 A
9377423 GGTCTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (12 bp):
ATTAATATTGTG
Found at i:9389615 original size:12 final size:13
Alignment explanation
Indices: 9389589--9389618 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
9389579 TTCTTATTGA
9389589 TCTTTACTGAAAC
1 TCTTTACTGAAAC
9389602 TCTTTACT-AAAC
1 TCTTTACTGAAAC
9389614 TCTTT
1 TCTTT
9389619 TGGCGAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.27, C:0.23, G:0.03, T:0.47
Consensus pattern (13 bp):
TCTTTACTGAAAC
Found at i:9390866 original size:18 final size:17
Alignment explanation
Indices: 9390820--9390865 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
9390810 TTTGCGGTGG
*
9390820 AAAAGCATTTTTAATCA
1 AAAAGTATTTTTAATCA
9390837 AAAAGTATTTTTAATCA
1 AAAAGTATTTTTAATCA
9390854 AAAAGTATTTTT
1 AAAAGTATTTTT
9390866 TTACCACAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (17 bp):
AAAAGTATTTTTAATCA
Found at i:9391337 original size:66 final size:66
Alignment explanation
Indices: 9391225--9391375 Score: 203
Period size: 66 Copynumber: 2.3 Consensus size: 66
9391215 TTGCCTTCGG
* * * * * *
9391225 TGAGGTTAAAAATAACAGTGACGGTAAGATTGGTTACTGTAGCGATGAGATAGAATACTGGAACA
1 TGAGATTAAAAACAACGGTGACGGTAAGATTGATTACTGTAACGATGAGATAGAATACTAGAACA
9391290 A
66 A
* * * *
9391291 TGAGATTAAAAACAACGGTGATGGTGAGATTGATTACTGTAACGATGAGATAGGATACTATAACA
1 TGAGATTAAAAACAACGGTGACGGTAAGATTGATTACTGTAACGATGAGATAGAATACTAGAACA
*
9391356 G
66 A
9391357 TGAGATTAAAAACAACGGT
1 TGAGATTAAAAACAACGGT
9391376 AGGATGTGTA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 74 1.00
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.25
Consensus pattern (66 bp):
TGAGATTAAAAACAACGGTGACGGTAAGATTGATTACTGTAACGATGAGATAGAATACTAGAACA
A
Found at i:9392450 original size:21 final size:19
Alignment explanation
Indices: 9392413--9392461 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
9392403 TATTAGTCTA
* *
9392413 AATTTTTTTTAATTTTTTT
1 AATTTTTTTTAAATTTTAT
*
9392432 GATTTTTTTTGAAAATTTTAT
1 AATTTTTTTT--AAATTTTAT
9392453 AATTTTTTT
1 AATTTTTTT
9392462 GTTGAGAGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 9 0.38
21 15 0.62
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (19 bp):
AATTTTTTTTAAATTTTAT
Found at i:9392542 original size:9 final size:9
Alignment explanation
Indices: 9392528--9392566 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
9392518 ACAACAACAT
9392528 ATTATTTGA
1 ATTATTTGA
9392537 ATTATTTGA
1 ATTATTTGA
*
9392546 ACTATTTGA
1 ATTATTTGA
* *
9392555 GTTATTCGA
1 ATTATTTGA
9392564 ATT
1 ATT
9392567 GTAAAATTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (9 bp):
ATTATTTGA
Found at i:9395090 original size:5 final size:5
Alignment explanation
Indices: 9395080--9395107 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
9395070 GTATGGACCT
9395080 TGGGC TGGGC TGGGC TGGGC TGGGC TGG
1 TGGGC TGGGC TGGGC TGGGC TGGGC TGG
9395108 CACTGGCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.61, T:0.21
Consensus pattern (5 bp):
TGGGC
Found at i:9406551 original size:16 final size:16
Alignment explanation
Indices: 9406530--9406567 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
9406520 TTGGTTTCAC
9406530 GTAAATTAGTTTTTGA
1 GTAAATTAGTTTTTGA
9406546 GTAAATTAGTTTTTGA
1 GTAAATTAGTTTTTGA
9406562 GTAAAT
1 GTAAAT
9406568 CATATTCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (16 bp):
GTAAATTAGTTTTTGA
Found at i:9412017 original size:20 final size:20
Alignment explanation
Indices: 9411992--9412030 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
9411982 TGTGAAGTTT
*
9411992 ATTGATGAGTATTTTATATA
1 ATTGATGAATATTTTATATA
9412012 ATTGATGAATATTTTATAT
1 ATTGATGAATATTTTATAT
9412031 TAGAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (20 bp):
ATTGATGAATATTTTATATA
Done.