Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 138 of 141
Found at i:41590803 original size:123 final size:123
Alignment explanation
Indices: 41590579--41591171 Score: 819
Period size: 132 Copynumber: 4.7 Consensus size: 123
41590569 GAGGATAAGA
* *
41590579 CTTGCTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
* *
41590644 CACTACTGCTTAGGGAGACAATCTTCAACCTACTCCGTTGCTGCTCAAGGAGACAAGG
66 CACTACTGCTTAGAGAGACAATCTTCAACCTACTCCGCTGCTGCTCAAGGAGACAAGG
41590702 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
* *
41590767 CACTACTGCTTAGAGAGACAATCTTTAACCTACTCCGCTACTGCTC-AGGAAGACAAGG
66 CACTACTGCTTAGAGAGACAATCTTCAACCTACTCCGCTGCTGCTCAAGG-AGACAAGG
* * *
41590825 TTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTAATCTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
* *
41590890 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCGCTCCTGCTCAAGGAGACAA
66 CACTACTGCTTA--GAG---AG----ACAATCTTCAACCTACTCCGCTGCTGCTCAAGGAGACAA
41590955 GG
122 GG
* * *
41590957 CTTGGTGGCTTAAATCTGTTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTGATCTGTTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
* * * *
41591022 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTACTCAGGGAGAAAA
66 CACTACTGCTTA--GAG---AG----ACAATCTTCAACCTACTCCGCTGCTGCTCAAGGAGACAA
41591087 GG
122 GG
* *
41591089 CTTGGTGGCTTAAATCTGCTTCCTACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
*
41591154 CACTACTGCTTAGGGAGA
66 CACTACTGCTTAGAGAGA
41591172 TGAGATCTAC
Statistics
Matches: 431, Mismatches: 28, Indels: 22
0.90 0.06 0.05
Matches are distributed among these distances:
122 3 0.01
123 188 0.44
125 3 0.01
127 2 0.00
128 2 0.00
130 2 0.00
132 228 0.53
133 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (123 bp):
CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
CACTACTGCTTAGAGAGACAATCTTCAACCTACTCCGCTGCTGCTCAAGGAGACAAGG
Found at i:41590909 original size:44 final size:44
Alignment explanation
Indices: 41590861--41591177 Score: 123
Period size: 44 Copynumber: 7.2 Consensus size: 44
41590851 TATCTTGGAA
*
41590861 AGATAAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * ** * * * * *
41590905 AGATAAGATCT-ACAATCTTCAGCCTACTCCGCTCCTGCTCAAGG
1 AGATAAGATTTGTC-GTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * *
41590949 AGACAAGGCTTGGT-GGCTTAAATCTGTTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTTGTCGTCTTCAATCTG-CT-CCACTACTGCTTAGG-G
** *
41590993 AGATAAGATTTGTCGTCTTTGATCTGTTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * * * *
41591037 AGATAAGATCT-ACAATCTTCAACCTTCTCCGCTGCTACTCAGGG
1 AGATAAGATTTGTC-GTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * *
41591081 AGAAAAGGCTTGGT-GGCTTAAATCTGCTTCCTACTA-T-CTT-GGAA
1 AGATAA-GATTTGTCGTCTTCAATCTGC-TCC-ACTACTGCTTAGG-G
* *
41591125 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
*
41591169 AGATGAGAT
1 AGATAAGAT
41591178 CTACTTTCTT
Statistics
Matches: 183, Mismatches: 70, Indels: 40
0.62 0.24 0.14
Matches are distributed among these distances:
42 10 0.05
43 21 0.11
44 132 0.72
45 14 0.08
46 6 0.03
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.32
Consensus pattern (44 bp):
AGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:41591232 original size:44 final size:44
Alignment explanation
Indices: 41591174--41591973 Score: 797
Period size: 44 Copynumber: 18.2 Consensus size: 44
41591164 TAGGGAGATG
* * *
41591174 AGATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACA
* * * *
41591219 GGATCTGC-ATCTTCGATCCACTTCCTACCAATATAAGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * * * *
41591262 GGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * *
41591306 AGATCTGCTTTCTTCGATCTACTTCGCTACCAATATGGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACA
* * * *
41591351 ATATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * * * *
41591394 GGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * *
41591438 AGATCTGCTTTCTTCGATCTACTTCGTCACCAATATGGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACA
** * *
41591483 AGATCTGC-ATCTTCGATCCCCTTCCTACTAATATAGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * * * * *
41591526 GGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * *
41591570 AGATCTGCTTTCTTCGATCTACTTCGTCACCAATATGGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACA
** * *
41591615 AGATCTGC-ATCTTCGATCCCCTTCCTACTAATATAGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * * * * *
41591658 GGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * *
41591702 AGATCTGCTTTCTTCGATCTACTTCGTCACCAATATGGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACA
** * *
41591747 AGATCTGC-ATCTTCGATCCCCTTCCTACTAATATAGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * * * * *
41591790 GGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * *
41591834 AGATCTACTTTCTTCGATCTACTTCGCC-CCAATATGGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACA
* * *
41591878 AGATTTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * * * * * *
41591921 GGATCTACTATCCTT-AATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTAT-CTTCGATCTACTTCCCACCAATATAGGAAGACA
41591965 AGATCTGCT
1 AGATCTGCT
41591974 TTTTCACTGA
Statistics
Matches: 610, Mismatches: 132, Indels: 27
0.79 0.17 0.04
Matches are distributed among these distances:
42 1 0.00
43 147 0.24
44 366 0.60
45 96 0.16
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (44 bp):
AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
Found at i:41591243 original size:132 final size:131
Alignment explanation
Indices: 41591174--41591975 Score: 1329
Period size: 132 Copynumber: 6.1 Consensus size: 131
41591164 TAGGGAGATG
* *
41591174 AGATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAGGATCTGCATCTTCGATCCA
1 AGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
* * *
41591239 CTTCCTACCAATATAAGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
66 CTTCCTA-CTATATAGGAAGACAGGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGA
41591304 CA
130 CA
* *
41591306 AGATCTGCTTTCTTCGATCTACTTCGCTACCAATATGGGAAGACAATATCTGCATCTTCGATCCA
1 AGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
* * *
41591371 CTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
66 CTTCCTA-CTATATAGGAAGACAGGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGA
41591436 CA
130 CA
* *
41591438 AGATCTGCTTTCTTCGATCTACTTCGTCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCC
1 AGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
41591503 CTTCCTACTAATATAGGAAGACAGGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGA
66 CTTCCTACT-ATATAGGAAGACAGGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGA
41591568 CA
130 CA
* *
41591570 AGATCTGCTTTCTTCGATCTACTTCGTCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCC
1 AGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
41591635 CTTCCTACTAATATAGGAAGACAGGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGA
66 CTTCCTACT-ATATAGGAAGACAGGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGA
41591700 CA
130 CA
* *
41591702 AGATCTGCTTTCTTCGATCTACTTCGTCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCC
1 AGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
41591767 CTTCCTACTAATATAGGAAGACAGGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGA
66 CTTCCTACT-ATATAGGAAGACAGGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGA
41591832 CA
130 CA
* *
41591834 AGATCTACTTTCTTCGATCTACTTCGCC-CCAATATGGGAAGACAAGATTTGCATCTTCGATCCA
1 AGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
* * * *
41591898 CTTCCTACCAATATAGGAAGACAGGATCTACTATCCTT-AATCTACTTCACGCCAATACATGAAG
66 CTTCCTA-CTATATAGGAAGACAGGATCTGCTGT-CTTCGATCTACTTCACGCCAATACATGAAG
41591962 ACA
129 ACA
41591965 AGATCTGCTTT
1 AGATCTGCTTT
41591976 TTCACTGATT
Statistics
Matches: 645, Mismatches: 22, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
131 102 0.16
132 543 0.84
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (131 bp):
AGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
CTTCCTACTATATAGGAAGACAGGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGAC
A
Found at i:41593251 original size:7 final size:8
Alignment explanation
Indices: 41593235--41593274 Score: 52
Period size: 7 Copynumber: 5.5 Consensus size: 8
41593225 AGCCTCTCTA
41593235 TTTT-ACT
1 TTTTCACT
41593242 TTTTCA-T
1 TTTTCACT
41593249 TTTTCACT
1 TTTTCACT
41593257 TTTT-ACT
1 TTTTCACT
41593264 TTTTCA-T
1 TTTTCACT
41593271 TTTT
1 TTTT
41593275 TTCATTTCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 23 0.77
8 7 0.23
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (8 bp):
TTTTCACT
Found at i:41593259 original size:15 final size:15
Alignment explanation
Indices: 41593235--41593281 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
41593225 AGCCTCTCTA
41593235 TTTT-ACTTTTTCAT
1 TTTTCACTTTTTCAT
41593249 TTTTCACTTTTT-ACT
1 TTTTCACTTTTTCA-T
*
41593264 TTTTCATTTTTTTCAT
1 TTTTCA-CTTTTTCAT
41593280 TT
1 TT
41593282 CGTCATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 5 0.18
15 14 0.50
16 8 0.29
17 1 0.04
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTCACTTTTTCAT
Found at i:41597387 original size:23 final size:22
Alignment explanation
Indices: 41597344--41597401 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
41597334 AAAGGGTATC
* *
41597344 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
41597365 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
41597388 TACATATCATATCT
1 TACAAATCATATCT
41597402 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:41597417 original size:21 final size:21
Alignment explanation
Indices: 41597391--41597579 Score: 346
Period size: 21 Copynumber: 9.1 Consensus size: 21
41597381 CTAAGATTAC
41597391 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
41597412 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
41597433 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
41597454 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
41597475 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
41597496 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
41597517 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
41597538 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
* *
41597557 ATATCATATCCAAGATTGTAT
1 ATATCATATCTAAGATTGCAT
41597578 AT
1 AT
41597580 CCTCGAAAAT
Statistics
Matches: 164, Mismatches: 2, Indels: 4
0.96 0.01 0.02
Matches are distributed among these distances:
19 17 0.10
21 147 0.90
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:41597602 original size:63 final size:62
Alignment explanation
Indices: 41597357--41597579 Score: 335
Period size: 63 Copynumber: 3.6 Consensus size: 62
41597347 AAATTAAATC
* * *
41597357 TCTAAGATTACAAAATCATATCTTCTAAGATT--ACATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCAATATCATA---TCTAAGATTGCATATATCATATCTAAGATTGCATATATCATA
41597420 TCTAAGATTGCATATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATATCATA
41597483 TCTAAGATTGCATATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATATCATA
* *
41597546 TCTAAGATTGC-ATATCATATCCAAGATTGTATAT
1 TCTAAGATTGCAATATCATATCTAAGATTGCATAT
41597580 CCTCGAAAAT
Statistics
Matches: 152, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
61 30 0.20
63 115 0.76
64 7 0.05
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.38
Consensus pattern (62 bp):
TCTAAGATTGCAATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATATCATA
Found at i:41597966 original size:44 final size:44
Alignment explanation
Indices: 41597890--41598397 Score: 168
Period size: 44 Copynumber: 11.7 Consensus size: 44
41597880 CTCTAATCCA
* * * * * *
41597890 CTCCACTACAACTT-AGGGAGACAGGATTTGTTTATTTAGTCTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGTTTACTTAGTCTG
41597933 C-CTCACTGCAACTTCAG-GAGGATAAGACTTGTTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGAGA-GATAAGACTTGTTTACTTAGTCTG
* **
41597977 CTCCACTGCAACTTCAGAGAGATAAGACTAG---AC-GCGATCTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGTTTACTTAG-TCTG
* ** * *
41598018 CT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTT--TT-GATCCG
1 CTCCACTGCAACTTCAGAGAGATAAGA--CTTGTTTACTTAG-TCTG
* * * * *** *
41598061 CTCCACTGTAACTTCAGGGAGATAGGA-TTATCGGCTCTAATCTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGTTTACT-TAGTCTG
* * * * ** *
41598105 CTCCATTGCAACTTTAGGGAGATAAGATTTG-CCATCTTCAGTCTA
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGTTTA-CTT-AGTCTG
* * *
41598150 C-CTCACTGCAACTTCA-AGAGGATAAGACTTGCTTGCTGAGTCTG
1 CTC-CACTGCAACTTCAGAGA-GATAAGACTTGTTTACTTAGTCTG
* * *** *
41598194 CTCCACTGCAACTTCAGGGAGATAAGACTAG-AGGC-GA-TCTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGTTTACTTAGTCTG
* ** * * *
41598235 CT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTT--TTAATCCG
1 CTCCACTGCAACTTCAGAGAGATAAGA--CTTGTTTACTTAGTCTG
* * *** *
41598278 CTCCACTGCAACTTCA-AGGAGATAGGA-TTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGA-GAGATAAGACTTGTTTAC-TTAGTCTG
* * ** *
41598322 CTCCACTGCAACTTCCGAGAGATAAGATTTG-CCATCTTCAATCTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGTTTA-CTT-AGTCTG
41598367 C-CCTACTGCAACTTCAG-GAGGATAAGACTTG
1 CTCC-ACTGCAACTTCAGAGA-GATAAGACTTG
41598398 CTGGCTTAAA
Statistics
Matches: 355, Mismatches: 69, Indels: 80
0.70 0.14 0.16
Matches are distributed among these distances:
40 46 0.13
41 14 0.04
42 10 0.03
43 29 0.08
44 185 0.52
45 71 0.20
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGAGAGATAAGACTTGTTTACTTAGTCTG
Found at i:41598308 original size:217 final size:217
Alignment explanation
Indices: 41597927--41598399 Score: 786
Period size: 217 Copynumber: 2.2 Consensus size: 217
41597917 TTGTTTATTT
* *
41597927 AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGTCTGCTCCACTGCAACTTC
1 AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTC
*
41597992 AGAGAGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTGA
66 AGAGAGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAA
* * * *
41598057 TCCGCTCCACTGTAACTTCAGGGAGATAGGATTATCGGCTCTAATCTGCTCCATTGCAACTTTAG
131 TCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTCTAATCTGCTCCACTGCAACTTCAG
*
41598122 GGAGATAAGATTTGCCATCTTC
196 AGAGATAAGATTTGCCATCTTC
* * *
41598144 AGTCTACCTCACTGCAACTTCAAGAGGATAAGACTTGCTTGCTGAGTCTGCTCCACTGCAACTTC
1 AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTC
* *
41598209 AGGGAGATAAGACTAGAGGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAA
66 AGAGAGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAA
* *
41598274 TCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCCG
131 TCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTCTAATCTGCTCCACTGCAACTTCAG
41598339 AGAGATAAGATTTGCCATCTTC
196 AGAGATAAGATTTGCCATCTTC
*
41598361 AATCTGCC-CTACTGCAACTTCAGGAGGATAAGACTTGCT
1 AGTCTGCCTC-ACTGCAACTTCAGGAGGATAAGACTTGCT
41598400 GGCTTAAATC
Statistics
Matches: 237, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
216 1 0.00
217 236 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (217 bp):
AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTC
AGAGAGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAA
TCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTCTAATCTGCTCCACTGCAACTTCAG
AGAGATAAGATTTGCCATCTTC
Found at i:41606893 original size:58 final size:57
Alignment explanation
Indices: 41606742--41606895 Score: 150
Period size: 58 Copynumber: 2.7 Consensus size: 57
41606732 AACACCAACT
* * *
41606742 TCTA-TAAAAGGATGCCTTTGTGGCTATCTTTGTTAAAAGAAAGTCTTTGTAGCGATC
1 TCTATTAAAAGGAAGCC-TTGTGGCTATCTCTGTTAAAAGAAAGCCTTTGTAGCGATC
* * * * * * *
41606799 TTTGTTAAAAGGAAGCCTTACTGGCTATATCGGTTAAAAGCAAGCCTTTGT-GATGATC
1 TCTATTAAAAGGAAGCCTT-GTGGCTATCTCTGTTAAAAGAAAGCCTTTGTAG-CGATC
* *
41606857 TCTATTAAAAAGAAGCCTCTGTGGCGATCTCTGTTAAAA
1 TCTATTAAAAGGAAGCCT-TGTGGCTATCTCTGTTAAAA
41606896 AGATGTCTTG
Statistics
Matches: 76, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
57 5 0.07
58 70 0.92
59 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.34
Consensus pattern (57 bp):
TCTATTAAAAGGAAGCCTTGTGGCTATCTCTGTTAAAAGAAAGCCTTTGTAGCGATC
Found at i:41606896 original size:29 final size:29
Alignment explanation
Indices: 41606746--41606898 Score: 121
Period size: 29 Copynumber: 5.3 Consensus size: 29
41606736 CCAACTTCTA
* * * *
41606746 TAAAAGGATGCCTTTGTGGCTATCTTTGT
1 TAAAAAGAAGCCTTTGTGGCGATCTCTGT
* * *
41606775 T-AAAAGAAAGTCTTTGTAGCGATCTTTGT
1 TAAAAAG-AAGCCTTTGTGGCGATCTCTGT
* ** * * *
41606804 TAAAAGGAAGCCTTACTGGCTATATCGGT
1 TAAAAAGAAGCCTTTGTGGCGATCTCTGT
** *
41606833 T-AAAAGCAAGCCTTTGTGATGATCTCTAT
1 TAAAAAG-AAGCCTTTGTGGCGATCTCTGT
*
41606862 TAAAAAGAAGCCTCTGTGGCGATCTCTGT
1 TAAAAAGAAGCCTTTGTGGCGATCTCTGT
41606891 TAAAAAGA
1 TAAAAAGA
41606899 TGTCTTGTGG
Statistics
Matches: 93, Mismatches: 27, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
28 8 0.09
29 76 0.82
30 9 0.10
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (29 bp):
TAAAAAGAAGCCTTTGTGGCGATCTCTGT
Found at i:41610915 original size:29 final size:29
Alignment explanation
Indices: 41610862--41610966 Score: 104
Period size: 29 Copynumber: 3.6 Consensus size: 29
41610852 TGTTTAAAAA
* *
41610862 AAGCCTTTGTGG-TGATGTATGTTAAAAGG
1 AAGCCTTTGTGGCT-ATCTATATTAAAAGG
41610891 AAGCCTTTGTGGCTATCTATATTAAAAGG
1 AAGCCTTTGTGGCTATCTATATTAAAAGG
* * ** ** *
41610920 AAGCTTTTATGGAAATCTCCATCAAAAGG
1 AAGCCTTTGTGGCTATCTATATTAAAAGG
*
41610949 AAGCCTTTGTGGCGATCT
1 AAGCCTTTGTGGCTATCT
41610967 TTGTTAACAA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
29 61 0.98
30 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (29 bp):
AAGCCTTTGTGGCTATCTATATTAAAAGG
Found at i:41622493 original size:39 final size:39
Alignment explanation
Indices: 41622239--41622501 Score: 241
Period size: 40 Copynumber: 6.6 Consensus size: 39
41622229 TTGAATGCTG
* * * * *
41622239 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
41622279 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
*
41622318 TTCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGATAC-AAA
1 -TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
41622358 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
41622399 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-T-CGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATAC--TAAA
* * *
41622439 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
41622478 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
41622502 TGAACGAGGA
Statistics
Matches: 196, Mismatches: 15, Indels: 25
0.83 0.06 0.11
Matches are distributed among these distances:
38 1 0.01
39 38 0.19
40 142 0.72
41 14 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:41622521 original size:79 final size:80
Alignment explanation
Indices: 41622292--41622536 Score: 205
Period size: 80 Copynumber: 3.1 Consensus size: 80
41622282 GGACTAAGAT
* * * * ** *
41622292 CCGAAGG-CATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGA-GATA
1 CCGAAGGCCA-TTGTGCGAGATACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-G
*
41622354 C-AAATTCCGGGTTAAGCC
63 CTAAA-TCCGGGTTAAGTC
* * * ** ** *
41622372 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGTTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
41622437 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * * *
41622452 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
41622516 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
41622530 CCGAAGG
1 CCGAAGG
41622537 TACGTGATTT
Statistics
Matches: 137, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
78 14 0.10
79 49 0.36
80 67 0.49
81 7 0.05
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:41628148 original size:27 final size:27
Alignment explanation
Indices: 41628117--41628170 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
41628107 TTTGTTAAGA
41628117 AGAAATTTTCTAATTAAGACTTAATTT
1 AGAAATTTTCTAATTAAGACTTAATTT
*
41628144 AGAAATTTTCTAATTAAGAGTTAATTT
1 AGAAATTTTCTAATTAAGACTTAATTT
41628171 TTTTTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (27 bp):
AGAAATTTTCTAATTAAGACTTAATTT
Found at i:41631780 original size:13 final size:13
Alignment explanation
Indices: 41631762--41631786 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41631752 ATTGGGTTTT
41631762 AATTAATTAATTA
1 AATTAATTAATTA
41631775 AATTAATTAATT
1 AATTAATTAATT
41631787 GAAGTGGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATTAATTAATTA
Found at i:41637749 original size:43 final size:43
Alignment explanation
Indices: 41637713--41637850 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 43
41637703 AGATCATGGT
* * * *
41637713 CTTTAGCAGCACTTTTGCCACAAACGCCACTAAAGATCATAAC
1 CTTTAGCAGCACTTTTGCCACAAAAGCCGCTAAAAATCATGAC
* * * * * *
41637756 CTTTAGC-GACGCTTCTACAACAAATGCCGCTAAAAATCATGGTC
1 CTTTAGCAG-CACTTTTGCCACAAAAGCCGCTAAAAATCAT-GAC
* * *
41637800 TTTTAGCGGCACTTTTGTCACAAAAGCCGCTAAAAATCATGAC
1 CTTTAGCAGCACTTTTGCCACAAAAGCCGCTAAAAATCATGAC
41637843 CTTTAGCA
1 CTTTAGCA
41637851 ACGCTTCTAT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
42 1 0.01
43 39 0.53
44 32 0.44
45 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (43 bp):
CTTTAGCAGCACTTTTGCCACAAAAGCCGCTAAAAATCATGAC
Found at i:41637815 original size:87 final size:86
Alignment explanation
Indices: 41637691--41637879 Score: 243
Period size: 87 Copynumber: 2.2 Consensus size: 86
41637681 TTATGTGAAA
* * * * *
41637691 AAACACCGTTAAAGATCATGGTCTTTAGCAGCACTTTTGCCACAAACGCCACTAAAGATCATAAC
1 AAACGCCGCTAAAAATCATGGTCTTTAGCAGCACTTTTGCCACAAAAGCCACTAAAAATCATAAC
*
41637756 CTTTAGCGACGCTTCTACAAC
66 CTTTAGCAACGCTTCTACAAC
* * * * *
41637777 AAATGCCGCTAAAAATCATGGTCTTTTAGCGGCACTTTTGTCACAAAAGCCGCTAAAAATCATGA
1 AAACGCCGCTAAAAATCATGGTC-TTTAGCAGCACTTTTGCCACAAAAGCCACTAAAAATCATAA
**
41637842 CCTTTAGCAACGCTTCTATTAC
65 CCTTTAGCAACGCTTCTACAAC
41637864 AAACGCCGCTATAAAA
1 AAACGCCGCTA-AAAA
41637880 ATGACTTTTA
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
86 19 0.22
87 64 0.74
88 4 0.05
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.25
Consensus pattern (86 bp):
AAACGCCGCTAAAAATCATGGTCTTTAGCAGCACTTTTGCCACAAAAGCCACTAAAAATCATAAC
CTTTAGCAACGCTTCTACAAC
Found at i:41637866 original size:43 final size:43
Alignment explanation
Indices: 41637732--41637923 Score: 158
Period size: 43 Copynumber: 4.5 Consensus size: 43
41637722 CACTTTTGCC
* * * *
41637732 ACAAACGCCACTAAAGATCATAACCTTTAGCGACGCTTCTACA
1 ACAAACGCCGCTAAAAATCATGACCTTTAGCGACGCTTCTATA
* * * * * * * *
41637775 ACAAATGCCGCTAAAAATCATGGTCTTTTAGCGGCACTTTTGTC
1 ACAAACGCCGCTAAAAATCAT-GACCTTTAGCGACGCTTCTATA
* * *
41637819 ACAAAAGCCGCTAAAAATCATGACCTTTAGCAACGCTTCTATT
1 ACAAACGCCGCTAAAAATCATGACCTTTAGCGACGCTTCTATA
* * * *
41637862 ACAAACGCCGCTATAAAA--ATGACTTTTAGTGACGCTT-TTTC
1 ACAAACGCCGCTA-AAAATCATGACCTTTAGCGACGCTTCTATA
*
41637903 ACAAACGCCGTTAAAAA-CATG
1 ACAAACGCCGCTAAAAATCATG
41637924 CTTATAAAAA
Statistics
Matches: 118, Mismatches: 28, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
40 4 0.03
41 17 0.14
42 16 0.14
43 44 0.37
44 37 0.31
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (43 bp):
ACAAACGCCGCTAAAAATCATGACCTTTAGCGACGCTTCTATA
Found at i:41637897 original size:42 final size:41
Alignment explanation
Indices: 41637811--41637919 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 41
41637801 TTTAGCGGCA
*
41637811 CTTTTGTCACAAAAGCCGCTA-AAAATCATGACCTTTAGCAACG
1 CTTTT-TCACAAACGCCGCTATAAAA--ATGACCTTTAGCAACG
* **
41637854 CTTCTATT-ACAAACGCCGCTATAAAAATGACTTTTAGTGACG
1 CTT-T-TTCACAAACGCCGCTATAAAAATGACCTTTAGCAACG
41637896 CTTTTTCACAAACGCCG-T-TAAAAA
1 CTTTTTCACAAACGCCGCTATAAAAA
41637920 CATGCTTATA
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
39 6 0.10
40 3 0.05
41 11 0.19
42 16 0.28
43 15 0.26
44 6 0.10
45 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (41 bp):
CTTTTTCACAAACGCCGCTATAAAAATGACCTTTAGCAACG
Found at i:41642229 original size:40 final size:40
Alignment explanation
Indices: 41642128--41642230 Score: 152
Period size: 40 Copynumber: 2.5 Consensus size: 40
41642118 TTTTGTGGCA
* *
41642128 TTTTTAAAATAGCACCGCTAAAGCTCAATCTATAGCGGCGT
1 TTTTTAAAA-AGCGCCGCTAATGCTCAATCTATAGCGGCGT
* *
41642169 TTTTTAAGAAGCGCCGCTAATGCTCGATCTATAGCGGCGT
1 TTTTTAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCGT
*
41642209 TTTTTAAAAATCGCCGCTAATG
1 TTTTTAAAAAGCGCCGCTAATG
41642231 TCTTTTATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
40 48 0.86
41 8 0.14
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (40 bp):
TTTTTAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCGT
Found at i:41642376 original size:75 final size:74
Alignment explanation
Indices: 41642260--41642414 Score: 265
Period size: 75 Copynumber: 2.1 Consensus size: 74
41642250 ATTTTATTTC
* *
41642260 TTATAATTTGGTCCTCTCCAAAATAAATAATTATACCTAAATATCCATATCAATCTATTACTTTT
1 TTATTATTTGGTCCTCTCCAAAATAAATAATTATACATAAATATCCATATCAATCTATTAC-TTT
41642325 TTTAACTTAT
65 TTTAACTTAT
* *
41642335 TTATTATTTGGTCCTCTCCAAAATAAATAATTATGCATAAATATCCATATCAATTTATTACTTTT
1 TTATTATTTGGTCCTCTCCAAAATAAATAATTATACATAAATATCCATATCAATCTATTACTTTT
41642400 TTAACTTAT
66 TTAACTTAT
41642409 TTATTA
1 TTATTA
41642415 ATTCTATTTA
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
74 19 0.25
75 57 0.75
ACGTcount: A:0.35, C:0.15, G:0.03, T:0.46
Consensus pattern (74 bp):
TTATTATTTGGTCCTCTCCAAAATAAATAATTATACATAAATATCCATATCAATCTATTACTTTT
TTAACTTAT
Found at i:41642616 original size:27 final size:27
Alignment explanation
Indices: 41642555--41642623 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
41642545 AAATTAACCA
* * *
41642555 TTCAATACATATAAAGTATACTCATAT
1 TTCAATACATTTAAACTACACTCATAT
*
41642582 TTAAAATA-ATTTAAACTACACTCATAAT
1 TT-CAATACATTTAAACTACACTCAT-AT
*
41642610 TTCAATATATTTAA
1 TTCAATACATTTAA
41642624 TTTATTATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
27 20 0.59
28 14 0.41
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.39
Consensus pattern (27 bp):
TTCAATACATTTAAACTACACTCATAT
Found at i:41642738 original size:15 final size:16
Alignment explanation
Indices: 41642713--41642743 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
41642703 CCCTAACTTG
41642713 ACCCTTAAATCCCTAA
1 ACCCTTAAATCCCTAA
41642729 ACCC-TAAATCCCTAA
1 ACCCTTAAATCCCTAA
41642744 CTCTTAACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.23
Consensus pattern (16 bp):
ACCCTTAAATCCCTAA
Found at i:41642834 original size:15 final size:14
Alignment explanation
Indices: 41642812--41642846 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
41642802 TCTGAACCCT
41642812 TAAACCATAATCCC
1 TAAACCATAATCCC
*
41642826 TAAATCCATACTCCC
1 TAAA-CCATAATCCC
41642841 TAAACC
1 TAAACC
41642847 TTAAAATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:41643203 original size:41 final size:41
Alignment explanation
Indices: 41643140--41643522 Score: 407
Period size: 41 Copynumber: 9.3 Consensus size: 41
41643130 TAAAATGTTT
*
41643140 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCCAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCACCCAGCA
* * *
41643181 TTAGCGGCGCTTTTCCAGAAACGCCGCTAAAGCACCCAACT
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCACCCAGCA
* **
41643222 TTAGCGACGCTTTTCCAAAAATTCCGCTAAAG-ACCCTAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCACCC-AGCA
* *
41643263 TTAGCGGCGCTTTTCCAGAAACGCCACTAAAG-ACCCCAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCA-CCCAGCA
*
41643304 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCCAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCACCCAGCA
** *
41643345 TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAACACCCAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCACCCAGCA
* ** * * ** **
41643386 TTAGCGGCGGTTTTTAAAAAATGCCACTAAAAAACAGAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCACCCAGCA
* * * * *
41643427 TTAGCGGCGCTTTTCCAAAAACACCACTAAATC-CTCGACCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCAC-CCAGCA
* * * *
41643468 TTAGCAGCGCATTTT-CAAAAATGCCGCTAAAGC-CCTGACCA
1 TTAGCGGCGC-TTTTCCAAAAACGCCGCTAAAGCACC-CAGCA
41643509 TTAGCGGCGCTTTT
1 TTAGCGGCGCTTTT
41643523 TTGAAAACGA
Statistics
Matches: 293, Mismatches: 43, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
40 10 0.03
41 276 0.94
42 7 0.02
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCACCCAGCA
Found at i:41643365 original size:123 final size:123
Alignment explanation
Indices: 41643140--41643523 Score: 459
Period size: 123 Copynumber: 3.1 Consensus size: 123
41643130 TAAAATGTTT
* *
41643140 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAG-CACCCAGCATTAGCGGCGCTTTTCCAGAAACG
1 TTAGCGGCGCTTTTTCAAAAACGCCACTAAAGAC-CCCAGCATTAGCGGCGCTTTTCCAAAAACG
* * * * *
41643204 CCGCTAAAGCACCCAACTTTAGCGACGCTTTTCCAAAAATTCCGCTAAAGACCCTAGCA
65 CCGCTAAAGCCCCCAACATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGACCCTAGCA
* *
41643263 TTAGCGGCGCTTTTCCAGAAACGCCACTAAAGACCCCAGCATTAGCGGCGCTTTTCCAAAAACGC
1 TTAGCGGCGCTTTTTCAAAAACGCCACTAAAGACCCCAGCATTAGCGGCGCTTTTCCAAAAACGC
* * * *
41643328 CGCTAAAGCCCCCAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAA-ACACCCAGCA
66 CGCTAAAGCCCCCAACATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGAC-CCTAGCA
* * * * * ** *
41643386 TTAGCGGCGGTTTTTAAAAAATGCCACTAAAAAACAGAGCATTAGCGGCGCTTTTCCAAAAACAC
1 TTAGCGGCGCTTTTTCAAAAACGCCACTAAAGACCCCAGCATTAGCGGCGCTTTTCCAAAAACGC
* * * * * * * *
41643451 CACTAAATCCTCGACCATTAGCAGCGCATTTTCAAAAATGCCGCTAAAG-CCCTGACCA
66 CGCTAAAGCCCCCAACATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGACCCT-AGCA
41643509 TTAGCGGCGCTTTTT
1 TTAGCGGCGCTTTTT
41643524 TGAAAACGAC
Statistics
Matches: 222, Mismatches: 35, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
122 4 0.02
123 217 0.98
124 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (123 bp):
TTAGCGGCGCTTTTTCAAAAACGCCACTAAAGACCCCAGCATTAGCGGCGCTTTTCCAAAAACGC
CGCTAAAGCCCCCAACATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGACCCTAGCA
Found at i:41650478 original size:25 final size:25
Alignment explanation
Indices: 41650418--41650478 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
41650408 CTCCTAAATT
*
41650418 TTAATTTAATTATCTAATTTTTTAA
1 TTAATTAAATTATCTAATTTTTTAA
* *
41650443 TTTATTGAATTAT-TAATATTTTCT-A
1 TTAATTAAATTATCTAAT-TTTT-TAA
41650468 TTAATTAAATT
1 TTAATTAAATT
41650479 TTTTAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 4 0.13
25 25 0.83
26 1 0.03
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTTAA
Found at i:41654641 original size:53 final size:53
Alignment explanation
Indices: 41654580--41654686 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
41654570 AGTCTTTTAT
41654580 GTGCTTATTAAATCGAGTTAATTGTTTGAATTGACATA-GAGATATGTACAAGA
1 GTGCTTATTAAATCGAGTTAATTGTTTGAATTGACATAGGA-ATATGTACAAGA
*
41654633 GTGCTTATTAAATTGAGTTAATTGTTTGAATTGACATAGGAATATGTACAAGA
1 GTGCTTATTAAATCGAGTTAATTGTTTGAATTGACATAGGAATATGTACAAGA
41654686 G
1 G
41654687 ATTATTTCAA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
53 50 0.96
54 2 0.04
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (53 bp):
GTGCTTATTAAATCGAGTTAATTGTTTGAATTGACATAGGAATATGTACAAGA
Found at i:41658806 original size:30 final size:30
Alignment explanation
Indices: 41658770--41658826 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
41658760 TCTTTCCCAC
*
41658770 TTATTCTTTGAGAATTGCCACAGCATTCAT
1 TTATTCTTTGAGAATTGCCACAACATTCAT
41658800 TTATTCTTTGAGAATTGCCACAACATT
1 TTATTCTTTGAGAATTGCCACAACATT
41658827 TTAATTGCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.40
Consensus pattern (30 bp):
TTATTCTTTGAGAATTGCCACAACATTCAT
Found at i:41661452 original size:19 final size:19
Alignment explanation
Indices: 41661419--41661468 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
41661409 TGGACTTATG
** *
41661419 TTGCTTCAACATATTTTCC
1 TTGCTTCAATTTATTATCC
*
41661438 TTGCTTCAATTTATTATCG
1 TTGCTTCAATTTATTATCC
*
41661457 TTGCTTTAATTT
1 TTGCTTCAATTT
41661469 TTACCAGTGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.54
Consensus pattern (19 bp):
TTGCTTCAATTTATTATCC
Found at i:41666652 original size:50 final size:50
Alignment explanation
Indices: 41666563--41666903 Score: 353
Period size: 50 Copynumber: 6.8 Consensus size: 50
41666553 ATTTGGGTAA
* * * *
41666563 AGAGATCCTATGTAAGACCATGTCTGGAACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
41666613 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * *
41666663 AGAGGTCCCATGTAAGACCATGTTTGGGACATGACATTGGCACAGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
41666713 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * *
41666763 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * * * * * *
41666813 AGAACTCTCATGTACGACCATATCTAGGATATGGCATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATG
* ** * * *
41666862 AAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
41666904 TGTTATATTC
Statistics
Matches: 243, Mismatches: 47, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
49 34 0.14
50 209 0.86
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:41667105 original size:12 final size:12
Alignment explanation
Indices: 41667088--41667131 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
41667078 AGGAGTAAGT
*
41667088 TAAGTAAGCAAG
1 TAAGTAAACAAG
*
41667100 TAAGTAAACGAG
1 TAAGTAAACAAG
*
41667112 TAAGTAAAGAAG
1 TAAGTAAACAAG
*
41667124 AAAGTAAA
1 TAAGTAAA
41667132 GATCTTACTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.57, C:0.05, G:0.23, T:0.16
Consensus pattern (12 bp):
TAAGTAAACAAG
Found at i:41669791 original size:31 final size:30
Alignment explanation
Indices: 41669733--41669794 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 30
41669723 AGTTCCACTT
* *
41669733 CTAAGAGTGATTGCCTTACATTACTCTTTC
1 CTAAGAGTGATAGCCTTACATCACTCTTTC
*
41669763 CNTAAGAGTGATAGCCTTGCA-CAGCTCTTTC
1 C-TAAGAGTGATAGCCTTACATCA-CTCTTTC
41669794 C
1 C
41669795 CTTGTGATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.34
Consensus pattern (30 bp):
CTAAGAGTGATAGCCTTACATCACTCTTTC
Found at i:41674058 original size:8 final size:9
Alignment explanation
Indices: 41674026--41674058 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
41674016 TTGCCACCCT
41674026 AGTGATTTC
1 AGTGATTTC
41674035 AGTGATTTC
1 AGTGATTTC
*
41674044 GGTGATTTC
1 AGTGATTTC
41674053 -GTGATT
1 AGTGATT
41674059 CAATTTGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 6 0.26
9 17 0.74
ACGTcount: A:0.18, C:0.09, G:0.27, T:0.45
Consensus pattern (9 bp):
AGTGATTTC
Found at i:41696365 original size:50 final size:50
Alignment explanation
Indices: 41696290--41696631 Score: 477
Period size: 50 Copynumber: 6.8 Consensus size: 50
41696280 ATCATAACAA
* * *
41696290 GCCAAAGCCAAGTCCCAGACATGGTCTTACATGGGACATCTCATCTCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
**** * ***
41696340 GCCAATAAAATCTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* *
41696390 GCCAACGCCATGTCCAAGACATGGTCTTACATGTGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* * * **
41696440 GCCAACACCATGTCCCAGACATGGTCTTACATGAGACCTCTTATCTTAGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
41696490 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* * * *
41696540 GCCAACGTCGTGTCCTAGACATGGTCTTACGTGGGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
*
41696590 GCCAACGCCATGTCCCAGACATGTTCTTACATGGGACCTCTC
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC
41696632 TACTCAAATG
Statistics
Matches: 252, Mismatches: 40, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 252 1.00
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.25
Consensus pattern (50 bp):
GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
Found at i:41697004 original size:30 final size:30
Alignment explanation
Indices: 41696969--41697026 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
41696959 CCTCGAATCT
41696969 AACTTTGT-CAAAATTACGATT-TTGCCCCTA
1 AACTTT-TACAAAATTAC-ATTATTGCCCCTA
*
41696999 AACTTTTACATAATTACATTATTGCCCC
1 AACTTTTACAAAATTACATTATTGCCCC
41697027 AAGGCTCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTTACAAAATTACATTATTGCCCCTA
Found at i:41701607 original size:20 final size:19
Alignment explanation
Indices: 41701560--41701618 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
41701550 TCAAGTTCAT
41701560 TCAGCTCAATTTTAGCTC-A
1 TCAGCTC-ATTTTAGCTCAA
* *
41701579 CCGAACTCACTTTTAGCTCAA
1 TC-AGCTCA-TTTTAGCTCAA
41701600 TCAGCTCATTTTAAGCTCA
1 TCAGCTCATTTT-AGCTCA
41701619 TTTGTGTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
19 6 0.19
20 24 0.75
21 2 0.06
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (19 bp):
TCAGCTCATTTTAGCTCAA
Found at i:41731781 original size:246 final size:246
Alignment explanation
Indices: 41731347--41731822 Score: 790
Period size: 246 Copynumber: 1.9 Consensus size: 246
41731337 AGCTTACTAA
*
41731347 ACCAACACATTTATCTATATATACATGCCACTACCCTAGGAGATACAAAAACTACCAACTTAGAT
1 ACCAACACATTTATCTATATATACATGCCACTACCCTAGGAGACACAAAAACTACCAACTTAGAT
*
41731412 GGATAATATGAGCCAATTGATCGATCCTTCCAAAATGTCAGCAACGATTCTCTACAAAACAATCC
66 GGATAATATGAGCCAATTGATCGATCCTTCCAAAATGTCAGCAACGATTATCTACAAAACAATCC
* * * *
41731477 ACAATAAGAGATAAGCTTACATAACTCAGTATGGACATAGTATAACATTTAATCTAAATACAATT
131 ACAAGAACAGATAAGCTTACATAACTCAGTAAGGACATAGTATAACATATAATCTAAATACAATT
* *
41731542 AGACACAATCCATATACTATTTGATTTAGGGTTATGAAACTATTTAACCAC
196 AGACACAACCCATATACTATTTGACTTAGGGTTATGAAACTATTTAACCAC
*
41731593 ACCAACATATTTATCTATATATACATGCCACTACCCTAGGAGACACAAAAACTACCAACTTAGAT
1 ACCAACACATTTATCTATATATACATGCCACTACCCTAGGAGACACAAAAACTACCAACTTAGAT
* * * * * *
41731658 GGATAGTGTGAGTCGATTGATTGATCCTTCCAAAATGTCAGTAACGATTATCTACAAAACAATCC
66 GGATAATATGAGCCAATTGATCGATCCTTCCAAAATGTCAGCAACGATTATCTACAAAACAATCC
* * *
41731723 ACAAGAACCGGTAAGCTTACATAACTTAGTAAGGACATAGTATAACATATAATCTAAATACAATT
131 ACAAGAACAGATAAGCTTACATAACTCAGTAAGGACATAGTATAACATATAATCTAAATACAATT
41731788 AGACACAACCCATATACTATTTGACTTAGGGTTAT
196 AGACACAACCCATATACTATTTGACTTAGGGTTAT
41731823 CAAAGTATAA
Statistics
Matches: 212, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
246 212 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (246 bp):
ACCAACACATTTATCTATATATACATGCCACTACCCTAGGAGACACAAAAACTACCAACTTAGAT
GGATAATATGAGCCAATTGATCGATCCTTCCAAAATGTCAGCAACGATTATCTACAAAACAATCC
ACAAGAACAGATAAGCTTACATAACTCAGTAAGGACATAGTATAACATATAATCTAAATACAATT
AGACACAACCCATATACTATTTGACTTAGGGTTATGAAACTATTTAACCAC
Found at i:41735121 original size:47 final size:47
Alignment explanation
Indices: 41735052--41735144 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 47
41735042 GTGGAAATCT
* * *
41735052 AAGTGCAGAACAAGGGGAAATAGAGAGATCTAGTTGATTAGCCTAGA
1 AAGTGCAGAACAAAGGGAAATAGAGAGATCCAGTTGAGTAGCCTAGA
41735099 AAGTGCAGAACAAAGGGAAATAGAGAGATCCAGTTGAGTAGCCTAG
1 AAGTGCAGAACAAAGGGAAATAGAGAGATCCAGTTGAGTAGCCTAG
41735145 GAATAGTATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.41, C:0.12, G:0.30, T:0.17
Consensus pattern (47 bp):
AAGTGCAGAACAAAGGGAAATAGAGAGATCCAGTTGAGTAGCCTAGA
Found at i:41753721 original size:27 final size:27
Alignment explanation
Indices: 41753440--41753837 Score: 354
Period size: 27 Copynumber: 15.2 Consensus size: 27
41753430 ACAGTCATTC
* * * *
41753440 TACCATTCGGGGGTATATCAGTAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
*
41753467 TACCCTTCGAGGGTATTT-GAATAATTT
1 TACCCTTCGAGGGTATTTCG-GTAATTT
*
41753494 TACCCTTTGAGGGTATTTCGGTAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
* ***
41753521 TACAC-AAAAGGGTATTTCGGTAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
* * *
41753547 TACCTTTCGAGGGTATTTCTGTAATTC
1 TACCCTTCGAGGGTATTTCGGTAATTT
* * *
41753574 CACCCTTCAAGGGTATTTCGG----TC
1 TACCCTTCGAGGGTATTTCGGTAATTT
* ***
41753597 TACCCTTCTAGGGTATTTCAAAAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
41753624 TACCCTTCGAGGGTATTTCGGTAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
* *
41753651 TACCCTTCGAGGGTATTTCGATAACTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
*
41753678 TACCCTTCGAGGGTATTTAGGTAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
*
41753705 TACCCTTCAAGGGTA-TTC--TAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
*** *
41753729 TACCC-AAAAGGGTATTTCAGTAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
*** * *
41753755 TACCC-AAAAGGATATTTCAGTAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
*
41753781 TACCCTTCGAGCGTATTTCGGTAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
*** *
41753808 TACCC-AAAAGGGTATTTCGATAA-TT
1 TACCCTTCGAGGGTATTTCGGTAATTT
41753833 TACCC
1 TACCC
41753838 ACGAATCATA
Statistics
Matches: 308, Mismatches: 52, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
23 26 0.08
24 14 0.05
25 7 0.02
26 72 0.23
27 188 0.61
28 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (27 bp):
TACCCTTCGAGGGTATTTCGGTAATTT
Found at i:41753771 original size:157 final size:155
Alignment explanation
Indices: 41753462--41753838 Score: 397
Period size: 157 Copynumber: 2.4 Consensus size: 155
41753452 GTATATCAGT
* * * *
41753462 AATTTTACCCTTCGAGGGTATTT-GAATAATTTTACCCTTTGAGGGTATTTCGGTAATTTTACAC
1 AATTTTACCCTTCGAGGGTATTTCG-GTAATTTTACCCTTAGAGGGTATTTCGATAA-TTTACCC
* * * **
41753526 AAAAGGGTATTTCGGTAATTTTACCTTTCGAGGGTATTTCTGTAATTCCACCCTTCAAGGGTATT
64 AAAAGGGTATTTAGGTAATTTTACCCTTCAAGGGTATTTC-GTAATTCCACCCTAAAAGGGTATT
*** *
41753591 TCGGTCTACCCTTCTAGGGTATTTCAAA
128 TCGGTCTACCCTAAAAGGATATTTCAAA
*
41753619 AATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCGATAACTTTACCCT
1 AATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTAGAGGGTATTTCGATAA-TTTACCC-
*** **
41753684 TCGAGGGTATTTAGGTAATTTTACCCTTCAAGGGTA-TTC-TAATTTTACCC-AAAAGGGTATTT
64 AAAAGGGTATTTAGGTAATTTTACCCTTCAAGGGTATTTCGTAATTCCACCCTAAAAGGGTATTT
* * **
41753746 CAGTAATTTTACCC-AAAAGGATATTTCAGT
129 C-G---GTCTACCCTAAAAGGATATTTCAAA
* * *
41753776 AATTTTACCCTTCGAGCGTATTTCGGTAATTTTACCC-AAAAGGGTATTTCGATAATTTACCCA
1 AATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTAGAGGGTATTTCGATAATTTACCCA
41753839 CGAATCATAG
Statistics
Matches: 186, Mismatches: 28, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
154 11 0.06
155 17 0.09
156 15 0.08
157 106 0.57
158 37 0.20
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.38
Consensus pattern (155 bp):
AATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTAGAGGGTATTTCGATAATTTACCCAA
AAGGGTATTTAGGTAATTTTACCCTTCAAGGGTATTTCGTAATTCCACCCTAAAAGGGTATTTCG
GTCTACCCTAAAAGGATATTTCAAA
Found at i:41756588 original size:40 final size:40
Alignment explanation
Indices: 41756357--41756581 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
41756347 TCGAATGATG
* * * * *
41756357 TCCGGGCTAAGTCCCGAAGGC-TTTATGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
41756397 TCCGGACTAACAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAA-GTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41756437 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
41756476 TCCGGGTTAAGTCCCGAAGGCGTTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41756516 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
41756557 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41756582 AACGAGTAGC
Statistics
Matches: 158, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
39 34 0.22
40 115 0.73
41 9 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41759624 original size:41 final size:41
Alignment explanation
Indices: 41759567--41759649 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
41759557 AAATGTCCCC
*
41759567 TAGTAATTCGAGGTTCCTGTTTTCCGGCGGACTTGATGCTT
1 TAGTAATTCGAGGTTCCTGTTTTCCAGCGGACTTGATGCTT
41759608 TAGTAATTCGAGGTTCCTGTTTTCCAGCGGACTTGATGCTT
1 TAGTAATTCGAGGTTCCTGTTTTCCAGCGGACTTGATGCTT
41759649 T
1 T
41759650 TGCCGTTTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.16, C:0.19, G:0.25, T:0.40
Consensus pattern (41 bp):
TAGTAATTCGAGGTTCCTGTTTTCCAGCGGACTTGATGCTT
Found at i:41763182 original size:56 final size:56
Alignment explanation
Indices: 41763096--41763215 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
41763086 ACAAGGGATG
41763096 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
41763152 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
41763208 ATGGGCAA
1 ATGGGCAA
41763216 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:41764582 original size:40 final size:40
Alignment explanation
Indices: 41764343--41764568 Score: 303
Period size: 40 Copynumber: 5.7 Consensus size: 40
41764333 TTGAATGATG
* * * * * *
41764343 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
41764383 TCCGGACTAAGACCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
41764423 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
41764463 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41764503 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
41764544 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGGCCCGAAGGCATTTG
41764569 AACGAGTAGC
Statistics
Matches: 172, Mismatches: 12, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
40 163 0.95
41 9 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41770125 original size:30 final size:30
Alignment explanation
Indices: 41770065--41770126 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
41770055 GCTTTTTGAA
** * * *
41770065 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGAAACCAAAATTTT
41770095 AATATTTACAAAAAGAGAAACCAAAATTTT
1 AATATTTACAAAAAGAGAAACCAAAATTTT
41770125 AA
1 AA
41770127 AAATAATTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAAGAGAAACCAAAATTTT
Found at i:41786169 original size:15 final size:15
Alignment explanation
Indices: 41786149--41786205 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
41786139 TCTTTAGATA
41786149 TGAAACTATAGACTT-
1 TGAAACTATAGA-TTG
*
41786164 TGAAACTATAAAATTG
1 TGAAACTAT-AGATTG
41786180 TGAAAACTATAGATTG
1 TG-AAACTATAGATTG
*
41786196 TGAGACTATA
1 TGAAACTATA
41786206 AGAAACTGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 18 0.50
16 11 0.31
17 7 0.19
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.32
Consensus pattern (15 bp):
TGAAACTATAGATTG
Found at i:41786195 original size:16 final size:16
Alignment explanation
Indices: 41786151--41786198 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
41786141 TTTAGATATG
41786151 AAACTATAGACTT-TG-
1 AAACTATAGA-TTGTGA
*
41786166 AAACTATAAAATTGTGA
1 AAACTAT-AGATTGTGA
41786183 AAACTATAGATTGTGA
1 AAACTATAGATTGTGA
41786199 GACTATAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 9 0.32
16 12 0.43
17 7 0.25
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (16 bp):
AAACTATAGATTGTGA
Found at i:41786905 original size:19 final size:19
Alignment explanation
Indices: 41786881--41786917 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
41786871 AGTTAGATAT
41786881 GTGGAGGCCAGGAGCCTTA
1 GTGGAGGCCAGGAGCCTTA
41786900 GTGGAGGCCAGGAGCCTT
1 GTGGAGGCCAGGAGCCTT
41786918 GAGTTTATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.19, C:0.22, G:0.43, T:0.16
Consensus pattern (19 bp):
GTGGAGGCCAGGAGCCTTA
Found at i:41791104 original size:20 final size:22
Alignment explanation
Indices: 41791060--41791106 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
41791050 ACTGATTTAT
41791060 TAAA-ATTGTAAAATTCAAGGA
1 TAAATATTGTAAAATTCAAGGA
*
41791081 -AAATATTGT-AAATT-ATGGA
1 TAAATATTGTAAAATTCAAGGA
41791100 TAAATAT
1 TAAATAT
41791107 GGGCTCTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 14 0.61
21 5 0.22
ACGTcount: A:0.51, C:0.02, G:0.13, T:0.34
Consensus pattern (22 bp):
TAAATATTGTAAAATTCAAGGA
Found at i:41799433 original size:27 final size:27
Alignment explanation
Indices: 41799403--41799580 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
41799393 ATATTGAGCC
* *
41799403 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
41799430 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
41799457 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* ** ** *
41799485 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
41799512 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
41799539 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
41799566 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
41799581 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 101 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:41799542 original size:82 final size:81
Alignment explanation
Indices: 41799424--41799579 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
41799414 TGCTATATAA
* * *
41799424 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
*
41799489 CTCTTAGTGCCGCATGG
65 CCCTTAGTGCCGCATGG
* * **
41799506 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
41799570 CCCTTAGTGC
65 CCCTTAGTGC
41799580 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
CCTTAGTGCCGCATGG
Found at i:41801515 original size:102 final size:102
Alignment explanation
Indices: 41801339--41801744 Score: 812
Period size: 102 Copynumber: 4.0 Consensus size: 102
41801329 CTTCACATAA
41801339 GAAAGCTTCTCGGTACACATTGTGACCTTTACTTAGTACTACACATGTGACCATCATTTATCGAT
1 GAAAGCTTCTCGGTACACATTGTGACCTTTACTTAGTACTACACATGTGACCATCATTTATCGAT
41801404 TCACGTAGTAGCCTTCACACAGTACTACACACGTGAC
66 TCACGTAGTAGCCTTCACACAGTACTACACACGTGAC
41801441 GAAAGCTTCTCGGTACACATTGTGACCTTTACTTAGTACTACACATGTGACCATCATTTATCGAT
1 GAAAGCTTCTCGGTACACATTGTGACCTTTACTTAGTACTACACATGTGACCATCATTTATCGAT
41801506 TCACGTAGTAGCCTTCACACAGTACTACACACGTGAC
66 TCACGTAGTAGCCTTCACACAGTACTACACACGTGAC
41801543 GAAAGCTTCTCGGTACACATTGTGACCTTTACTTAGTACTACACATGTGACCATCATTTATCGAT
1 GAAAGCTTCTCGGTACACATTGTGACCTTTACTTAGTACTACACATGTGACCATCATTTATCGAT
41801608 TCACGTAGTAGCCTTCACACAGTACTACACACGTGAC
66 TCACGTAGTAGCCTTCACACAGTACTACACACGTGAC
41801645 GAAAGCTTCTCGGTACACATTGTGACCTTTACTTAGTACTACACATGTGACCATCATTTATCGAT
1 GAAAGCTTCTCGGTACACATTGTGACCTTTACTTAGTACTACACATGTGACCATCATTTATCGAT
41801710 TCACGTAGTAGCCTTCACACAGTACTACACACGTG
66 TCACGTAGTAGCCTTCACACAGTACTACACACGTG
41801745 TTCATCGATA
Statistics
Matches: 304, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 304 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (102 bp):
GAAAGCTTCTCGGTACACATTGTGACCTTTACTTAGTACTACACATGTGACCATCATTTATCGAT
TCACGTAGTAGCCTTCACACAGTACTACACACGTGAC
Found at i:41801734 original size:51 final size:51
Alignment explanation
Indices: 41801373--41801740 Score: 316
Period size: 51 Copynumber: 7.2 Consensus size: 51
41801363 ACCTTTACTT
41801373 AGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACAC
1 AGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACAC
* * * * * * * * * * **
41801424 AGTACTACACACGTGACGA-AAGCTTCTCGGTACACATTGT-GACCTTTACTT
1 AGTACTACACATGTGACCATCA-TTTATCGATTCACGTAGTAG-CCTTCACAC
41801475 AGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACAC
1 AGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACAC
* * * * * * * * * * **
41801526 AGTACTACACACGTGACGA-AAGCTTCTCGGTACACATTGT-GACCTTTACTT
1 AGTACTACACATGTGACCATCA-TTTATCGATTCACGTAGTAG-CCTTCACAC
41801577 AGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACAC
1 AGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACAC
* * * * * * * * * * **
41801628 AGTACTACACACGTGACGA-AAGCTTCTCGGTACACATTGT-GACCTTTACTT
1 AGTACTACACATGTGACCATCA-TTTATCGATTCACGTAGTAG-CCTTCACAC
41801679 AGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACAC
1 AGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACAC
41801730 AGTACTACACA
1 AGTACTACACA
41801741 CGTGTTCATC
Statistics
Matches: 233, Mismatches: 72, Indels: 24
0.71 0.22 0.07
Matches are distributed among these distances:
50 6 0.03
51 221 0.95
52 6 0.03
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (51 bp):
AGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACAC
Found at i:41814721 original size:22 final size:22
Alignment explanation
Indices: 41814687--41814729 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
41814677 GAATGGCAAT
41814687 TTGTCACATTTTTACTGACAAC
1 TTGTCACATTTTTACTGACAAC
41814709 TTGTCTACATTTTTACTGACA
1 TTGTC-ACATTTTTACTGACA
41814730 GAATTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (22 bp):
TTGTCACATTTTTACTGACAAC
Found at i:41833211 original size:6 final size:6
Alignment explanation
Indices: 41833200--41833226 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
41833190 CATCTTAAAA
41833200 TATATT TATATT TATATT TATATT TAT
1 TATATT TATATT TATATT TATATT TAT
41833227 TTGTTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:41833561 original size:17 final size:17
Alignment explanation
Indices: 41833518--41833554 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
41833508 AACAATTTCA
*
41833518 ATAATATTTTAAAAAAT
1 ATAAAATTTTAAAAAAT
41833535 ATAAAATTTTAAAAAAT
1 ATAAAATTTTAAAAAAT
41833552 ATA
1 ATA
41833555 TATTTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAAAATTTTAAAAAAT
Found at i:41837504 original size:12 final size:11
Alignment explanation
Indices: 41837487--41837516 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
41837477 TCTTTTTCTT
41837487 AAGAAAAAGAAA
1 AAGAAAAAG-AA
41837499 AAGAAAAAGAA
1 AAGAAAAAGAA
41837510 AAGAAAA
1 AAGAAAA
41837517 CTTCTCTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAGAAAAAGAA
Found at i:41837505 original size:5 final size:6
Alignment explanation
Indices: 41837487--41837516 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
41837477 TCTTTTTCTT
41837487 AAGAAA AAGAAA AAGAAA AAG-AA AAGAAA A
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA A
41837517 CTTCTCTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:41839930 original size:28 final size:29
Alignment explanation
Indices: 41839895--41839976 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 29
41839885 GCGATTAGAT
*
41839895 TTAAATTTTAAAATATTAAAATAA-AG-AA
1 TTAAATTTTAAAATA-TAAAAAAATAGAAA
41839923 TTAAATTTTTGAAAATA-AAAAAAATAGAAA
1 TTAAA-TTTT-AAAATATAAAAAAATAGAAA
*
41839953 TTAAATTTCAAAACTATAAAAAAA
1 TTAAATTTTAAAA-TATAAAAAAA
41839977 ACACAAAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
28 15 0.33
29 11 0.24
30 20 0.43
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (29 bp):
TTAAATTTTAAAATATAAAAAAATAGAAA
Found at i:41840578 original size:17 final size:19
Alignment explanation
Indices: 41840549--41840584 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
41840539 CATAACTTTT
41840549 TAAAGTAAAAATT-AAAAA
1 TAAAGTAAAAATTGAAAAA
41840567 TAAAGT-AAAATTGAAAAA
1 TAAAGTAAAAATTGAAAAA
41840585 GAGAGAGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.22
Consensus pattern (19 bp):
TAAAGTAAAAATTGAAAAA
Found at i:41841556 original size:43 final size:43
Alignment explanation
Indices: 41841380--41841702 Score: 289
Period size: 43 Copynumber: 7.5 Consensus size: 43
41841370 TTGAAGCACT
* * * *
41841380 GCTAAAGAACATGATCTTCAGCGGCGCTTGTGA-AA-AAGACGCC
1 GCTAAAGAACATGACCTTTAGCGGCACTT-TTACAACAA-ACGCC
* * *** *
41841423 GCTGAAGATCATCTTCTTTAACGGCACTTTATA-AA-AAACGCC
1 GCTAAAGAACATGACCTTTAGCGGCACTTT-TACAACAAACGCC
* * *
41841465 GCTAAAGAACATGATCTTTAGCAGGCGCTTTTATC-ACAATCGCC
1 GCTAAAGAACATGACCTTTAGC-GGCACTTTTA-CAACAAACGCC
*
41841509 GCTAAAGAACATGACCTTTAGCGGCACTTTTACAACAAACGCT
1 GCTAAAGAACATGACCTTTAGCGGCACTTTTACAACAAACGCC
* * * *
41841552 GCTAAAGAACATGGCATTTAGCGGCACTTTTTCCACAAACGCC
1 GCTAAAGAACATGACCTTTAGCGGCACTTTTACAACAAACGCC
* * * * * *
41841595 GTTAAAGAAAATGACCTTTAGTGGCGCTTTTCCCAA-AAACACC
1 GCTAAAGAACATGACCTTTAGCGGCACTTTT-ACAACAAACGCC
* * * *
41841638 GCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAATGCC
1 GCTAAAGAACATGACCTTTAGCGGCACTTTTACAACAAACGCC
*
41841681 ACTAAAGAACATGACCTTTAGC
1 GCTAAAGAACATGACCTTTAGC
41841703 TGCGCTTTCC
Statistics
Matches: 232, Mismatches: 40, Indels: 16
0.81 0.14 0.06
Matches are distributed among these distances:
42 29 0.12
43 174 0.75
44 29 0.12
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
GCTAAAGAACATGACCTTTAGCGGCACTTTTACAACAAACGCC
Found at i:41841708 original size:43 final size:43
Alignment explanation
Indices: 41841458--41841724 Score: 320
Period size: 43 Copynumber: 6.2 Consensus size: 43
41841448 ACTTTATAAA
* **
41841458 AAACGCCGCTAAAGAACATGATCTTTAGCAGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGC-GGCGCTTTTCCCAC
* * * *
41841502 AATCGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTACAAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
41841545 AAACGCTGCTAAAGAACATGGCATTTAGCGGCACTTTTTCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
41841588 AAACGCCGTTAAAGAAAATGACCTTTAGTGGCGCTTTTCCCAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
*
41841631 AAACACCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* * *
41841674 AAATGCCACTAAAGAACATGACCTTTAGCTGCGC-TTTCCCAAAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCC--AC
41841718 AAACGCC
1 AAACGCC
41841725 TTTAAAGGTT
Statistics
Matches: 191, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
42 6 0.03
43 150 0.79
44 35 0.18
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:41842029 original size:21 final size:21
Alignment explanation
Indices: 41841988--41842054 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
41841978 TTCTGCTCTG
* * *
41841988 CTCTGCTTCTCTCACTACAGC
1 CTCTGCTTCCCTCGCTGCAGC
41842009 CTCTGCTTCCCTCGCTGCAG-
1 CTCTGCTTCCCTCGCTGCAGC
* *
41842029 CTGTTGCTTCCCTCGCTGCCGC
1 CT-CTGCTTCCCTCGCTGCAGC
41842051 CTCT
1 CTCT
41842055 ACTTTAAGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
20 2 0.05
21 34 0.89
22 2 0.05
ACGTcount: A:0.06, C:0.45, G:0.16, T:0.33
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:41844826 original size:20 final size:21
Alignment explanation
Indices: 41844798--41844923 Score: 72
Period size: 20 Copynumber: 6.3 Consensus size: 21
41844788 TTGTACGGGA
*
41844798 TTTGCACTTTGGTG-CCCTTG
1 TTTGCACTTCGGTGCCCCTTG
*
41844818 TTTGTACTTCGGTGCCCCTTG
1 TTTGCACTTCGGTGCCCCTTG
* * *
41844839 --TACACTTCAGTGTCCC-TG
1 TTTGCACTTCGGTGCCCCTTG
* *
41844857 TTCGCA-TTACAGTGCCCC-TG
1 TTTGCACTT-CGGTGCCCCTTG
*
41844877 TTTGCACATT-TGTGCCCC-TG
1 TTTGCAC-TTCGGTGCCCCTTG
* *
41844897 TCTGTACTTCGGTGCCCC-TG
1 TTTGCACTTCGGTGCCCCTTG
41844917 TTATGCA
1 TT-TGCA
41844924 TCTATGATGC
Statistics
Matches: 82, Mismatches: 16, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
18 2 0.02
19 16 0.20
20 53 0.65
21 9 0.11
22 2 0.02
ACGTcount: A:0.10, C:0.30, G:0.21, T:0.38
Consensus pattern (21 bp):
TTTGCACTTCGGTGCCCCTTG
Found at i:41846203 original size:12 final size:12
Alignment explanation
Indices: 41846186--41846210 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41846176 TGTCCACATA
41846186 GCCTAAGACACG
1 GCCTAAGACACG
41846198 GCCTAAGACACG
1 GCCTAAGACACG
41846210 G
1 G
41846211 GCGTGTGACT
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:0.32, C:0.32, G:0.28, T:0.08
Consensus pattern (12 bp):
GCCTAAGACACG
Found at i:41846762 original size:10 final size:10
Alignment explanation
Indices: 41846747--41846771 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
41846737 ATTGAAATAA
41846747 TAAAATATTT
1 TAAAATATTT
41846757 TAAAATATTT
1 TAAAATATTT
41846767 TAAAA
1 TAAAA
41846772 ATTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TAAAATATTT
Found at i:41847724 original size:73 final size:72
Alignment explanation
Indices: 41847502--41847711 Score: 262
Period size: 73 Copynumber: 2.9 Consensus size: 72
41847492 GTTTCCTATA
* * ** * *
41847502 AAGCGCCGCAAA-AAATCTCAGCCCAACGACTTCGTTTTCTG-CCATTCGGGGATTTAGCGGCAT
1 AAGCGCCGCAAAGAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGCGGCGT
*
41847565 TTTTAAG
66 TTTTGAG
* * * *
41847572 AATGTGCCACAAAGAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGTGACTTAGCGGCG
1 AA-GCGCCGCAAAGAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGCGGCG
41847637 TTTTTGAGG
65 TTTTTGA-G
* * *
41847646 AAGCGCCGCAAAGAAACCTAAGCCCAACGAGGCCGTTCTCTGAGTATTCGGGGATTTAGCGGCGT
1 AAGCGCCGCAAAGAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGCGGCGT
41847711 T
66 T
41847712 CATGGAGAAG
Statistics
Matches: 118, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
70 2 0.02
71 8 0.07
72 25 0.21
73 80 0.68
74 3 0.03
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (72 bp):
AAGCGCCGCAAAGAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGCGGCGT
TTTTGAG
Found at i:41847837 original size:114 final size:114
Alignment explanation
Indices: 41847628--41847838 Score: 255
Period size: 114 Copynumber: 1.9 Consensus size: 114
41847618 ATTCGGTGAC
*
41847628 TTAGCGGCGTTTTTGAGGAAGCGCCGCAAAGAAACCTAAGCCCAACGAGGCCGTTCTCTGAGTAT
1 TTAGCGGCGTTTTTGAGGAAGCGCCGCAAAGAAACCTAAGCCCAACGAGGCCGTTCTCTGAGCAT
** *
41847693 TCGGGGATTTAGCGGCGTTCATGGAGAAGCGCTGCTAATTCTCAGGTCT
66 TCGGGGATTTAGCGGCGTTCATAAACAAGCGCTGCTAATTCTCAGGTCT
* * * * ** *
41847742 TTAGTGGCGTTTTTG-GGAAAGCGCCGCAAA-AAACCTCAGCCTAACGATGTTGTTTTACTGAGC
1 TTAGCGGCGTTTTTGAGG-AAGCGCCGCAAAGAAACCTAAGCCCAACGAGGCCGTTCT-CTGAGC
* * **
41847805 ATTGGGGGATTTAGTGGCGTTTTTAAACAAGCGC
64 ATTCGGGGATTTAGCGGCGTTCATAAACAAGCGC
41847839 CACAAAATAA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
113 22 0.28
114 58 0.73
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGAGGAAGCGCCGCAAAGAAACCTAAGCCCAACGAGGCCGTTCTCTGAGCAT
TCGGGGATTTAGCGGCGTTCATAAACAAGCGCTGCTAATTCTCAGGTCT
Found at i:41849363 original size:147 final size:147
Alignment explanation
Indices: 41849212--41849609 Score: 344
Period size: 147 Copynumber: 2.7 Consensus size: 147
41849202 TTGTCTATGG
* * * * * *
41849212 TATTAGTGGCGTTTTTTTGGAAACGCCACAAGCTTGAGTTAACTGTTGGGGAAACGACTTC-GTT
1 TATTAGTGGCGATTTTTCGAAAACGCCACAAGCTTGAGGTAACTGTTGAGGAAACGACTGCAGTT
* * * *
41849276 TGATCTTATATTTAGTGGCGCTTTACTTAAAACGCCTCAAAATTGTTCTAACATTTATAGAAATG
66 TGAT-TTATAGTTAGTGGCGCTTTACTTAAAACGCCGCAAAAATATTCTAACATTTATAGAAATG
41849341 TTGCCATTTTTTAAATAT
130 TTGCCATTTTTTAAATAT
* ** * * * * *
41849359 TATTAGTGGCGATTTTTCGAAAATGCCACGGGTTTGAGGTAAGTGTTGATGAAGCGACTGCATTT
1 TATTAGTGGCGATTTTTCGAAAACGCCACAAGCTTGAGGTAACTGTTGAGGAAACGACTGCAGTT
* * * * * *
41849424 TGATTTATAGTTAGTGGCGCTTTGCTTAAAACGCCGCAAAAATATTTTAACATTTATCGATACGA
66 TGATTTATAGTTAGTGGCGCTTTACTTAAAACGCCGCAAAAATATTCTAACATTTATAGAAATGT
* * * *
41849489 GGCCGTTTTGCT--GTAT
131 TGCCATTTT-TTAAATAT
* * * ** *
41849505 TATTAGTGGCG-TTTATTCAAAAACGCCAC-AGGTGTGAGCTATTTGTTGATGG-AACGACT-CC
1 TATTAGTGGCGATTT-TTCGAAAACGCCACAAGCT-TGAGGTAACTGTTGA-GGAAACGACTGCA
* * *
41849566 GTTTCGACTTATAGTTAGTGGTGC-TTATTTATAAACGCCGCAAA
63 GTTT-GATTTATAGTTAGTGGCGCTTTACTTA-AAACGCCGCAAA
41849610 TGGTTAATTT
Statistics
Matches: 201, Mismatches: 43, Indels: 15
0.78 0.17 0.06
Matches are distributed among these distances:
145 14 0.07
146 73 0.36
147 107 0.53
148 7 0.03
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (147 bp):
TATTAGTGGCGATTTTTCGAAAACGCCACAAGCTTGAGGTAACTGTTGAGGAAACGACTGCAGTT
TGATTTATAGTTAGTGGCGCTTTACTTAAAACGCCGCAAAAATATTCTAACATTTATAGAAATGT
TGCCATTTTTTAAATAT
Found at i:41849580 original size:146 final size:143
Alignment explanation
Indices: 41849264--41849609 Score: 338
Period size: 146 Copynumber: 2.4 Consensus size: 143
41849254 CTGTTGGGGA
* * * * *
41849264 AACGACTTCGTTTGATCTTATATTTAGTGGCGCTTTACTTAAAACGCCTCAAAATTGTTCTAACA
1 AACGACTCCGTTTGA-CTTATAGTTAGTGGCGCTTT-CTTAAAACGCCGCAAAAATATTCTAACA
* ** * * * * *
41849329 TTTATAGAAATGTTGCCATTTTTTAAATATTATTAGTGGCGATTTTTCGAAAATGCCACGGGTTT
64 TTTATAGAAACGAGGCCATTTTCT-AATATTATTAGTGGCGATTTTTCAAAAACGCCACAGGTGT
*
41849394 GAGGTAAGTGTTGATG
128 GAGCTAAGTGTTGATG
** * *
41849410 AAGCGACTGCATTTTGATTTATAGTTAGTGGCGCTTTGCTTAAAACGCCGCAAAAATATTTTAAC
1 AA-CGACT-CCGTTTGACTTATAGTTAGTGGCGCTTT-CTTAAAACGCCGCAAAAATATTCTAAC
* * * *
41849475 ATTTATCGATACGAGGCCGTTTTGCT-GTATTATTAGTGGCG-TTTATTCAAAAACGCCACAGGT
63 ATTTATAGAAACGAGGCCATTTT-CTAATATTATTAGTGGCGATTT-TTCAAAAACGCCACAGGT
**
41849538 GTGAGCTATTTGTTGATGG
126 GTGAGCTAAGTGTTGAT-G
*
41849557 AACGACTCCGTTTCGACTTATAGTTAGTGGTGCTTAT-TTATAAACGCCGCAAA
1 AACGACTCCGTTT-GACTTATAGTTAGTGGCGCTT-TCTTA-AAACGCCGCAAA
41849610 TGGTTAATTT
Statistics
Matches: 163, Mismatches: 29, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
145 10 0.06
146 80 0.49
147 67 0.41
148 6 0.04
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (143 bp):
AACGACTCCGTTTGACTTATAGTTAGTGGCGCTTTCTTAAAACGCCGCAAAAATATTCTAACATT
TATAGAAACGAGGCCATTTTCTAATATTATTAGTGGCGATTTTTCAAAAACGCCACAGGTGTGAG
CTAAGTGTTGATG
Found at i:41849713 original size:23 final size:23
Alignment explanation
Indices: 41849683--41849728 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
41849673 CGAGATATTT
41849683 CTCCATCAGTTATCCCCCAAAAC
1 CTCCATCAGTTATCCCCCAAAAC
41849706 CTCCATCAGTTATCCCCCAAAAC
1 CTCCATCAGTTATCCCCCAAAAC
41849729 TCATTCTCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.43, G:0.04, T:0.22
Consensus pattern (23 bp):
CTCCATCAGTTATCCCCCAAAAC
Found at i:41852844 original size:20 final size:20
Alignment explanation
Indices: 41852819--41852862 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
41852809 AGGACACTTC
41852819 ATAACTTATATAATATTAAG
1 ATAACTTATATAATATTAAG
41852839 ATAACTTATATAATATTAAG
1 ATAACTTATATAATATTAAG
41852859 ATAA
1 ATAA
41852863 AATTTCTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (20 bp):
ATAACTTATATAATATTAAG
Found at i:41852974 original size:37 final size:37
Alignment explanation
Indices: 41852933--41853137 Score: 120
Period size: 37 Copynumber: 5.5 Consensus size: 37
41852923 CTCATTTTAG
* *
41852933 ATAACTTATACAATATTAAGATAAAATTT-TGAATTAC
1 ATAACTTATATAATATTAAGAT-AAATTTATAAATTAC
* * *
41852970 ATAACTTATATAATATTAAGATTACTTATATAATATTAAG
1 ATAACTTATATAATATTAAGATAAATT-TATAA-ATT-AC
* ** * * *
41853010 ATCAAATT-T-CGA-ATT-ACATAACTTATATAATATTAAG
1 AT-AACTTATATAATATTAAGATAAATT-TATAA-ATT-AC
* **
41853047 ATTACTTATATAATATTAAGATCAAATTT-CGAATTAC
1 ATAACTTATATAATATTAAGAT-AAATTTATAAATTAC
*
41853084 ATAACTTATATAATATTAAGATAAAATTTCT-AATTAC
1 ATAACTTATATAATATTAAGAT-AAATTTATAAATTAC
*
41853121 ATAACTTACATAA-ATTA
1 ATAACTTATATAATATTA
41853138 CATAACTTAC
Statistics
Matches: 134, Mismatches: 23, Indels: 23
0.74 0.13 0.13
Matches are distributed among these distances:
36 10 0.07
37 91 0.68
38 9 0.07
39 8 0.06
40 8 0.06
41 8 0.06
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (37 bp):
ATAACTTATATAATATTAAGATAAATTTATAAATTAC
Found at i:41852997 original size:57 final size:57
Alignment explanation
Indices: 41852931--41853105 Score: 314
Period size: 57 Copynumber: 3.1 Consensus size: 57
41852921 TTCTCATTTT
* * * *
41852931 AGATAACTTATACAATATTAAGATAAAATTTTGAATTACATAACTTATATAATATTA
1 AGATTACTTATATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTA
41852988 AGATTACTTATATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTA
1 AGATTACTTATATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTA
41853045 AGATTACTTATATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTA
1 AGATTACTTATATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTA
41853102 AGAT
1 AGAT
41853106 AAAATTTCTA
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 114 1.00
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (57 bp):
AGATTACTTATATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTA
Found at i:41853092 original size:151 final size:151
Alignment explanation
Indices: 41852818--41853151 Score: 403
Period size: 151 Copynumber: 2.2 Consensus size: 151
41852808 CAGGACACTT
*
41852818 CATAACTTATATAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTC
1 CATAACTTATATAATATTAAGATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTC
* * ** * * * *
41852883 GTTTAATATTAATTTCTAATTTGTAAGTACACATCAATTTCTCATTTTAGATAACTTATACAATA
66 ATATAATATTAAGATCTAATTTATAAGTAAACATCAATTTCTCATATTACATAACTTATACAATA
41852948 TTAAGATAAAATTT-TGAATTA
131 TTAAGATAAAATTTCT-AATTA
* * *
41852969 CATAACTTATATAATATTAAGATTACTTATATAATATTAAGATCAAATTTCGAATTACATAACTT
1 CATAACTTATATAATATTAAGATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTC
* * * *
41853034 ATATAATATTAAGAT-TACTTATATAA-TATTAAGATCAAATTTC-GA-ATTACATAACTTATAT
66 ATATAATATTAAGATCTAATT-TATAAGTA--AACATC-AATTTCTCATATTACATAACTTATAC
41853095 AATATTAAGATAAAATTTCTAATTA
127 AATATTAAGATAAAATTTCTAATTA
* * *
41853120 CATAACTTACATAA-ATT-ACATAACTTACATAA
1 CATAACTTATATAATATTAAGATAACTTATATAA
41853152 CTTACATAAA
Statistics
Matches: 158, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
149 12 0.08
150 9 0.06
151 125 0.79
152 6 0.04
153 6 0.04
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.40
Consensus pattern (151 bp):
CATAACTTATATAATATTAAGATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTC
ATATAATATTAAGATCTAATTTATAAGTAAACATCAATTTCTCATATTACATAACTTATACAATA
TTAAGATAAAATTTCTAATTA
Found at i:41853131 original size:9 final size:9
Alignment explanation
Indices: 41853117--41853341 Score: 261
Period size: 9 Copynumber: 25.9 Consensus size: 9
41853107 AAATTTCTAA
41853117 TTACATAAC
1 TTACATAAC
*
41853126 TTACATAAA
1 TTACATAAC
41853135 TTACATAAC
1 TTACATAAC
41853144 TTACATAAC
1 TTACATAAC
*
41853153 TTACATAAA
1 TTACATAAC
*
41853162 TTAAATAAC
1 TTACATAAC
41853171 TTACATAAC
1 TTACATAAC
*
41853180 TTAAATAAC
1 TTACATAAC
41853189 TTACATAA-
1 TTACATAAC
41853197 -TACATAACC
1 TTACATAA-C
*
41853206 TT-CCTAAC
1 TTACATAAC
* *
41853214 TTACATTAT
1 TTACATAAC
*
41853223 TTAGATAA-
1 TTACATAAC
*
41853231 -TACATAGC
1 TTACATAAC
*
41853239 CTACATAAC
1 TTACATAAC
41853248 TTACATAAC
1 TTACATAAC
41853257 TTACATAAC
1 TTACATAAC
41853266 TTACATAAC
1 TTACATAAC
*
41853275 TTCCATAAC
1 TTACATAAC
41853284 TTACATAAC
1 TTACATAAC
*
41853293 TCACATAA-
1 TTACATAAC
*
41853301 -TACACAAC
1 TTACATAAC
41853309 TTACATAAC
1 TTACATAAC
41853318 TTACATAA-
1 TTACATAAC
41853326 -TACATAAC
1 TTACATAAC
41853334 TTACATAA
1 TTACATAA
41853342 TACATAAAAA
Statistics
Matches: 182, Mismatches: 24, Indels: 20
0.81 0.11 0.09
Matches are distributed among these distances:
7 24 0.13
8 3 0.02
9 154 0.85
10 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:41853252 original size:95 final size:95
Alignment explanation
Indices: 41853117--41853349 Score: 296
Period size: 95 Copynumber: 2.5 Consensus size: 95
41853107 AAATTTCTAA
41853117 TTACATAACTTACATAAATTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTT
1 TTACATAACTTACAT-AA-TACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTT
*
41853182 AAATAACTTACATAA-T-ACATAACCTTC-CTAAC
64 AAATAACTTACATAACTCACATAA--TACAC-AAC
* * * * * * * **
41853214 TTACATTATTTAGATAATACATAGCCTACATAACTTACATAACTTACATAACTTACATAACTTCC
1 TTACATAACTTACATAATACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTAA
41853279 ATAACTTACATAACTCACATAATACACAAC
66 ATAACTTACATAACTCACATAATACACAAC
41853309 TTACATAACTTACATAATACATAACTTACATAA--TACATAAA
1 TTACATAACTTACATAATACATAACTTACATAACTTACATAAA
41853350 AATATATCAT
Statistics
Matches: 117, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
93 7 0.06
95 88 0.75
96 4 0.03
97 18 0.15
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (95 bp):
TTACATAACTTACATAATACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTAA
ATAACTTACATAACTCACATAATACACAAC
Found at i:41853252 original size:104 final size:104
Alignment explanation
Indices: 41853136--41853323 Score: 297
Period size: 104 Copynumber: 1.8 Consensus size: 104
41853126 TTACATAAAT
*
41853136 TACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTAAATAACTTACATAATACA
1 TACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTAAATAACTCACATAATACA
* *
41853201 TAACCTT-CCTAACTTACATTATTTAGATAATACATAGCC
66 CAA-CTTACATAACTTACATTATTTAGATAATACATAGCC
* * * *
41853240 TACATAACTTACATAACTTACATAACTTACATAACTTCCATAACTTACATAACTCACATAATACA
1 TACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTAAATAACTCACATAATACA
41853305 CAACTTACATAACTTACAT
66 CAACTTACATAACTTACAT
41853324 AATACATAAC
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
103 3 0.04
104 73 0.96
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (104 bp):
TACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTAAATAACTCACATAATACA
CAACTTACATAACTTACATTATTTAGATAATACATAGCC
Found at i:41853339 original size:104 final size:106
Alignment explanation
Indices: 41853118--41853348 Score: 296
Period size: 104 Copynumber: 2.2 Consensus size: 106
41853108 AATTTCTAAT
*
41853118 TACATAACTTACATAAATTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTA
1 TACATAACTTACATAAACTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTA
* * * *
41853183 AATAACTTACATAATACATAACCTTCCTAACTTACATTATT
66 AATAACTCACATAATACACAACCTTCATAACTTACATTATA
* ** * * *
41853224 TAGATAA--TACATAGCCTACATAACTTACATAACTTACATAACTTACATAACTTCCATAACTTA
1 TACATAACTTACATAAACTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTA
*
41853287 CATAACTCACATAATACACAA-CTTACATAACTTACA-TA-A
66 AATAACTCACATAATACACAACCTT-CATAACTTACATTATA
41853326 TACATAACTTACAT-AA-TACATAA
1 TACATAACTTACATAAACTACATAA
41853349 AAATATATCA
Statistics
Matches: 107, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
102 13 0.12
103 5 0.05
104 83 0.78
106 6 0.06
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (106 bp):
TACATAACTTACATAAACTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTA
AATAACTCACATAATACACAACCTTCATAACTTACATTATA
Found at i:41856174 original size:21 final size:21
Alignment explanation
Indices: 41856148--41856191 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
41856138 GGTACAAGCA
*
41856148 CATCGATATGTTCTGTTTCAC
1 CATCGATATGTTCTATTTCAC
41856169 CATCGATATGTTCTATTTCAC
1 CATCGATATGTTCTATTTCAC
41856190 CA
1 CA
41856192 CAAATCAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (21 bp):
CATCGATATGTTCTATTTCAC
Found at i:41868480 original size:27 final size:26
Alignment explanation
Indices: 41868450--41868500 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
41868440 ATGAAATTCT
*
41868450 TACAAA-CAATATGATTGATTAACAATA
1 TACAAAGCAA-ATGA-TGAATAACAATA
41868477 TACAAAGCAAATGATGAATAACAA
1 TACAAAGCAAATGATGAATAACAA
41868501 ATTAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 10 0.45
28 3 0.14
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.24
Consensus pattern (26 bp):
TACAAAGCAAATGATGAATAACAATA
Found at i:41868988 original size:19 final size:19
Alignment explanation
Indices: 41868960--41868998 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
41868950 GAAATCATAC
*
41868960 TAATAATAAGCCTAAAAAA
1 TAATAATAAGCCAAAAAAA
*
41868979 TAATATTAAGCCAAAAAAA
1 TAATAATAAGCCAAAAAAA
41868998 T
1 T
41868999 TAATGTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.23
Consensus pattern (19 bp):
TAATAATAAGCCAAAAAAA
Found at i:41870737 original size:44 final size:44
Alignment explanation
Indices: 41870684--41870916 Score: 189
Period size: 44 Copynumber: 5.1 Consensus size: 44
41870674 CCTTTACTTT
* * *
41870684 AATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* *
41870728 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* * * * * *** *
41870772 AATTTGATGCGATCTACTTTACAGTAACTTCAGAGAGATAAGA-TCCTTTATTTT
1 AA--T-CTGC--TCCACTGTA-A-T--C-TCAGGGAGATAAGATTAC-TGGCTTC
** *
41870826 AATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* *
41870870 AATCTGCTCTACTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
41870914 AAT
1 AAT
41870917 TTGATGCGAT
Statistics
Matches: 145, Mismatches: 32, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
44 98 0.68
45 3 0.02
46 1 0.01
47 4 0.03
48 1 0.01
49 13 0.09
50 1 0.01
51 2 0.01
52 1 0.01
53 3 0.02
54 18 0.12
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
Found at i:41870890 original size:142 final size:142
Alignment explanation
Indices: 41870634--41871017 Score: 624
Period size: 142 Copynumber: 2.7 Consensus size: 142
41870624 AGATAAGACC
* * * *
41870634 TGATGTGATCTACTCAACTGTAACTTCAGAAAGATAAGATCCTTTACTTTAATCCGCTCCACTGT
1 TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
* *
41870699 AATCTCAGAGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
66 AATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT
41870764 CTGGCTTCAATT
131 CTGGCTTCAATT
* * *
41870776 TGATGCGATCTACTTTACAGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGT
1 TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
*
41870841 AATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCTACTGTAATCTCAGGGAGATAAGATTT
66 AATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT
41870906 CTGGCTTCAATT
131 CTGGCTTCAATT
* * * * *
41870918 TGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAAAGCCTTTATTTTAATCTGCTCTACTGT
1 TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
*
41870983 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
66 AATCTCAGGGAGATAGGATTACTGGCTTCAATCTG
41871018 ATGCGATCTA
Statistics
Matches: 223, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
142 223 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (142 bp):
TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
AATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT
CTGGCTTCAATT
Found at i:41870939 original size:98 final size:98
Alignment explanation
Indices: 41870866--41871115 Score: 302
Period size: 98 Copynumber: 2.6 Consensus size: 98
41870856 GGATTACTGG
* * *
41870866 CTTCAATCTGCTCTACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATTTGATGCGATCTAC
1 CTTCAATCTGCTCTACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGATGCGATCTAC
* *
41870931 TCTGCTGTAACTTCAGAGAGATAAAAGCCTTTA
66 TCTGCTGTAACTTCAGAGAGATAAAAGACTTGA
* * *
41870964 TTTTAATCTGCTCTACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGATGCGATCTAC
1 CTTCAATCTGCTCTACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGATGCGATCTAC
* * * * ** *
41871029 TCTACTATAACTTGAGAGAGATAAGATCCTTTA
66 TCTGCTGTAACTTCAGAGAGATAAAAGACTTGA
* * * * * * *
41871062 TTTTAATCCGCTCCACTGTAATATCAAGGAGATAGGATTACTAGCTTCAATCTG
1 CTTCAATCTGCTCTACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
41871116 CTCCACTGTA
Statistics
Matches: 137, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 137 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (98 bp):
CTTCAATCTGCTCTACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGATGCGATCTAC
TCTGCTGTAACTTCAGAGAGATAAAAGACTTGA
Found at i:41871158 original size:44 final size:44
Alignment explanation
Indices: 41871066--41871161 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 44
41871056 CCTTTATTTT
* * *
41871066 AATCCGCTCCACTGTAATATCAAGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATATCAAGGAGATAAGATTACTAGCTTA
* * * *
41871110 AATCTGCTCCACTGTAATCTCAGGGAGATAAGACTT-GTGGCTTA
1 AATCTGCTCCACTGTAATATCAAGGAGATAAGA-TTACTAGCTTA
41871154 AATCTGCT
1 AATCTGCT
41871162 TCCTTACACT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 42 0.95
45 2 0.05
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATATCAAGGAGATAAGATTACTAGCTTA
Found at i:41892746 original size:19 final size:19
Alignment explanation
Indices: 41892720--41892765 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
41892710 TTAATAATCT
* *
41892720 TGAATGCATATG-ATGACA
1 TGAATGCAGATGCATGAAA
41892738 TGCAATGCAGATGCATGAAA
1 TG-AATGCAGATGCATGAAA
41892758 TGAATGCA
1 TGAATGCA
41892766 AAATAGAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (19 bp):
TGAATGCAGATGCATGAAA
Found at i:41896853 original size:19 final size:19
Alignment explanation
Indices: 41896812--41896849 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
41896802 GAAATCATAC
41896812 TAATAATAAGCCTAAAAAA
1 TAATAATAAGCCTAAAAAA
*
41896831 TAATATTAAGCC-AAAAAA
1 TAATAATAAGCCTAAAAAA
41896849 T
1 T
41896850 TAATGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.24
Consensus pattern (19 bp):
TAATAATAAGCCTAAAAAA
Found at i:41902304 original size:45 final size:45
Alignment explanation
Indices: 41902253--41902347 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
41902243 ATAAAGATAC
* * *
41902253 TCGGTGGATTCAGCACATACCAACCACCTTATTAATCAATGATGT
1 TCGGTGGAATCAGAACATACCAACCACCTTACTAATCAATGATGT
* *
41902298 TCGGTGGAATCATAACATATCAACCACCTTACTAATCAATGATGT
1 TCGGTGGAATCAGAACATACCAACCACCTTACTAATCAATGATGT
41902343 TCGGT
1 TCGGT
41902348 TCACATAGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (45 bp):
TCGGTGGAATCAGAACATACCAACCACCTTACTAATCAATGATGT
Found at i:41902412 original size:51 final size:50
Alignment explanation
Indices: 41902344--41902541 Score: 191
Period size: 51 Copynumber: 3.9 Consensus size: 50
41902334 CAATGATGTT
* * * *
41902344 CGGTTCACATAGTAGCCTGCACATATTACTACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * * *
41902395 CGATACACGTAGTAGCCTGCAAATAGTACTACACACGTGATCGAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
* * * * * *
41902446 CGGTACGCATAGTAGCCTGTACATATAGTACTACACAGGCGACC-TATCATTC
1 CGGTACACGTAGTAGCCTG--CACATAGTACTACACACGTGACCATACCA-TC
* *
41902498 CGGTACACGTAGTAGCCTACACATAGTACTACACACATGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
41902542 CACTTTCACT
Statistics
Matches: 116, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
50 19 0.16
51 58 0.50
52 21 0.18
53 18 0.16
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:41902534 original size:52 final size:52
Alignment explanation
Indices: 41902392--41902534 Score: 132
Period size: 53 Copynumber: 2.8 Consensus size: 52
41902382 GACCATTACC
* * * *
41902392 ATCCGATACACGTAGTAGCCTGCAAATAGTACTACACAC-GTGATCGAAACT
1 ATCCGGTACACGTAGTAGCCTACAAATAGTACTACACACAGCGACCGAAACT
* * * * * *
41902443 ATCCGGTACGCATAGTAGCCTGTACATATAGTACTACACA-GGCGACC-TATC-
1 ATCCGGTACACGTAGTAGCC--TACAAATAGTACTACACACAGCGACCGAAACT
*
41902494 ATTCCGGTACACGTAGTAGCCTACACATAGTACTACACACA
1 A-TCCGGTACACGTAGTAGCCTACAAATAGTACTACACACA
41902535 TGACCATCAC
Statistics
Matches: 74, Mismatches: 13, Indels: 10
0.76 0.13 0.10
Matches are distributed among these distances:
50 17 0.23
51 18 0.24
52 19 0.26
53 20 0.27
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.22
Consensus pattern (52 bp):
ATCCGGTACACGTAGTAGCCTACAAATAGTACTACACACAGCGACCGAAACT
Found at i:41902561 original size:103 final size:99
Alignment explanation
Indices: 41902350--41902537 Score: 234
Period size: 103 Copynumber: 1.8 Consensus size: 99
41902340 TGTTCGGTTC
* * *
41902350 ACATAGTAGCCTGCACATATTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATATTACTACACAGGCGACCA-TACCATCCGATACACGTAGTAGCCTAC
* *
41902415 AAATAGTACTACACACGTGATCGAAACTATCCGGT
65 AAATAGTACTACACACATGATCCAAACTATCCGGT
* * *
41902450 ACGCATAGTAGCCTGTACATATAGTACTACACAGGCGACC-TATCATTCCGGTACACGTAGTAGC
1 A--CATAGTAGCCTGCACATAT--TACTACACAGGCGACCATACCA-TCCGATACACGTAGTAGC
*
41902514 CTACACATAGTACTACACACATGA
61 CTACAAATAGTACTACACACATGA
41902538 CCATCACTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
100 1 0.01
102 22 0.29
103 38 0.51
104 14 0.19
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.23
Consensus pattern (99 bp):
ACATAGTAGCCTGCACATATTACTACACAGGCGACCATACCATCCGATACACGTAGTAGCCTACA
AATAGTACTACACACATGATCCAAACTATCCGGT
Found at i:41907327 original size:45 final size:45
Alignment explanation
Indices: 41907258--41907352 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 45
41907248 TAACAGATAC
*
41907258 TCGGTGGATTCAGCACATACCAACCACCTTATTAATCAATGATGT
1 TCGGTGGATTCAGCACATACCAACCACCTTACTAATCAATGATGT
*
41907303 TCGGTGGAATT-AGCACATAGCAACCACCTTACTAATCAATGATGT
1 TCGGTGG-ATTCAGCACATACCAACCACCTTACTAATCAATGATGT
41907348 TCGGT
1 TCGGT
41907353 TCACATAGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 44 0.94
46 3 0.06
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (45 bp):
TCGGTGGATTCAGCACATACCAACCACCTTACTAATCAATGATGT
Found at i:41907424 original size:51 final size:50
Alignment explanation
Indices: 41907369--41907535 Score: 165
Period size: 51 Copynumber: 3.3 Consensus size: 50
41907359 AGTACCTTGT
* * *
41907369 ACATAGTACTACACATGTGCCCTTTCCCATCCGATACACGTAGTAGCCTGC
1 ACATAGTACTACACATGTGACCTAT-CCATCCGGTACACGTAGTAGCCTGC
* ** * * * * *
41907420 ACATAGTACTACACACGTGATCGAAACTATCTGGTACGCATAGTAGCCTGC
1 ACATAGTACTACACATGTGA-CCTATCCATCCGGTACACGTAGTAGCCTGC
* * * *
41907471 ACATAGTACTACAAATGCGACCTAT-CATTCCGGTATACGTAGTAGCCTAC
1 ACATAGTACTACACATGTGACCTATCCA-TCCGGTACACGTAGTAGCCTGC
41907521 ACATAGTACTACACA
1 ACATAGTACTACACA
41907536 CGTGGCCATC
Statistics
Matches: 90, Mismatches: 24, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
49 1 0.01
50 33 0.37
51 55 0.61
52 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (50 bp):
ACATAGTACTACACATGTGACCTATCCATCCGGTACACGTAGTAGCCTGC
Found at i:41910123 original size:22 final size:23
Alignment explanation
Indices: 41910098--41910149 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
41910088 TGGTCAAGCC
* *
41910098 ACCACATAATTGCCGATAAAC-G
1 ACCACATAATTACAGATAAACTG
41910120 ACCACATAATTACAGATAAACTG
1 ACCACATAATTACAGATAAACTG
41910143 -CCACATA
1 ACCACATA
41910150 TCTTCCTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.44, C:0.27, G:0.10, T:0.19
Consensus pattern (23 bp):
ACCACATAATTACAGATAAACTG
Found at i:41912675 original size:21 final size:21
Alignment explanation
Indices: 41912624--41912682 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
41912614 GAAGATTATT
*
41912624 CCTGAATTGCACATACGTGCC
1 CCTGAATTGCACATACGTACC
* *
41912645 CCT-ATTTGCAC-TTCGATACC
1 CCTGAATTGCACATACG-TACC
41912665 CCTGAATTGCACATACGT
1 CCTGAATTGCACATACGT
41912683 TCCCTAGCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 3 0.10
20 13 0.43
21 11 0.37
22 3 0.10
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (21 bp):
CCTGAATTGCACATACGTACC
Found at i:41912681 original size:41 final size:41
Alignment explanation
Indices: 41912624--41912793 Score: 184
Period size: 41 Copynumber: 4.2 Consensus size: 41
41912614 GAAGATTATT
* *
41912624 CCTGAATTGCACATACGTGCCCCTATTTGCACTTCGATACC
1 CCTGAATTGCACATACGTGCCCCTACTTGTACTTCGATACC
*
41912665 CCTGAATTGCACATACGT-TCCCTAGCTTGTACTTCGATACC
1 CCTGAATTGCACATACGTGCCCCTA-CTTGTACTTCGATACC
* * * * *
41912706 CCTAAATTACACATAAGTGCCCCTGCTTGTACTTCGGTACC
1 CCTGAATTGCACATACGTGCCCCTACTTGTACTTCGATACC
* * ** *
41912747 CCTAAATTGCACATAAC-TACCCCTGTTTGTACTTCGGTA-C
1 CCTGAATTGCACAT-ACGTGCCCCTACTTGTACTTCGATACC
41912787 CCTGAAT
1 CCTGAAT
41912794 GTATTTTTGT
Statistics
Matches: 112, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 12 0.11
41 95 0.85
42 5 0.04
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.31
Consensus pattern (41 bp):
CCTGAATTGCACATACGTGCCCCTACTTGTACTTCGATACC
Found at i:41914260 original size:50 final size:50
Alignment explanation
Indices: 41914205--41914328 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 50
41914195 CATTGAGATT
* * * *
41914205 ATGAGAGGTCCTATGTAAGACCATGTC-TGGAACATGGCGTTGGCACCGAG
1 ATGAGAAGTCCCATGTAAGACCATGTCTTGG-ACATGGCATGGGCACCGAG
** * *
41914255 ATGAGAAGTCCCCCGTAAGGCCATGTCTTGGACATGGCATGGGCACCGAT
1 ATGAGAAGTCCCATGTAAGACCATGTCTTGGACATGGCATGGGCACCGAG
*
41914305 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAAGTCCCATGTAAGACCAT
41914329 ATATGGGATA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 58 0.95
51 3 0.05
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.21
Consensus pattern (50 bp):
ATGAGAAGTCCCATGTAAGACCATGTCTTGGACATGGCATGGGCACCGAG
Found at i:41921844 original size:50 final size:50
Alignment explanation
Indices: 41921741--41921930 Score: 209
Period size: 50 Copynumber: 3.7 Consensus size: 50
41921731 GGGAATGAGA
* **
41921741 TCCCATGTAAGACCATGTATGGGACATGGCATTGGAATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGG---CACCGAG---ATGAGAGG
*
41921797 TCCTATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * **
41921847 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * *
41921897 TCCCATGGAAGACCATATCTGGGATATGGCATTG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTG
41921931 ACAGTACAGA
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
50 79 0.68
53 5 0.04
56 33 0.28
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:41929228 original size:41 final size:41
Alignment explanation
Indices: 41929171--41929337 Score: 217
Period size: 41 Copynumber: 4.1 Consensus size: 41
41929161 ATTATTCCTA
* * *
41929171 AATTGCACATATGTGCCCCTATTTATACTTTGATACCCCTG
1 AATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTG
* *
41929212 AATTGCACATACGTGCCCCTACTTGTACTTCGGTACCCCTG
1 AATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTG
* * * * * ** *
41929253 AATTGCACATAAGTACCCTTGTTTGTACTTAGGCACCCTTG
1 AATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTG
41929294 AATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTG
1 AATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTG
41929335 AAT
1 AAT
41929338 GTATTTTTGT
Statistics
Matches: 105, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 105 1.00
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTG
Found at i:41929269 original size:21 final size:21
Alignment explanation
Indices: 41929204--41929270 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
41929194 TATACTTTGA
*
41929204 TACCCCTGAATTGCACATACG
1 TACCCCTGAATTGCACATAAG
* * * * **
41929225 TGCCCCT-ACTTGTACTTCGG
1 TACCCCTGAATTGCACATAAG
41929245 TACCCCTGAATTGCACATAAG
1 TACCCCTGAATTGCACATAAG
41929266 TACCC
1 TACCC
41929271 TTGTTTGTAC
Statistics
Matches: 33, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.24, C:0.34, G:0.15, T:0.27
Consensus pattern (21 bp):
TACCCCTGAATTGCACATAAG
Found at i:41938557 original size:35 final size:35
Alignment explanation
Indices: 41938505--41938574 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
41938495 TGCCACCGTC
*
41938505 AGTGACTGAATTGTTCCTTTCTGTTTTCCCTTTCT
1 AGTGACTGAATTCTTCCTTTCTGTTTTCCCTTTCT
* * *
41938540 AGTGACTGATTTCTTCCTTTTTGTTTTCTCTTTCT
1 AGTGACTGAATTCTTCCTTTCTGTTTTCCCTTTCT
41938575 CTTACCGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.10, C:0.21, G:0.13, T:0.56
Consensus pattern (35 bp):
AGTGACTGAATTCTTCCTTTCTGTTTTCCCTTTCT
Found at i:41941138 original size:75 final size:75
Alignment explanation
Indices: 41941049--41941210 Score: 195
Period size: 75 Copynumber: 2.2 Consensus size: 75
41941039 TCAAATTTTA
* * ** * *
41941049 ATTATGTGTTTTGTTTGTTAAATGCATCTTTATTTAATTTTTTGCATTAATACATCTA-CATCTT
1 ATTATGTGTTTTGTTTATTAAATGCATCTTTAGTTAATGCTTTACATTAATACAT-TAGCATCCT
41941113 TTAA-AATGTGC
65 TTAAGAAT-TGC
* *
41941124 ATTATGT-TTCTTGTTTATTGAATGCATTTTTAGTTAATGCTTTACATTAATACATTAGCATCCT
1 ATTATGTGTT-TTGTTTATTAAATGCATCTTTAGTTAATGCTTTACATTAATACATTAGCATCCT
*
41941188 TTAAGACTTGC
65 TTAAGAATTGC
41941199 ATTATGTGTTTT
1 ATTATGTGTTTT
41941211 TCATATTTAA
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
74 4 0.05
75 66 0.89
76 4 0.05
ACGTcount: A:0.26, C:0.11, G:0.12, T:0.51
Consensus pattern (75 bp):
ATTATGTGTTTTGTTTATTAAATGCATCTTTAGTTAATGCTTTACATTAATACATTAGCATCCTT
TAAGAATTGC
Found at i:41943345 original size:13 final size:14
Alignment explanation
Indices: 41943327--41943355 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
41943317 AAAATTGCTT
41943327 AAAAATCAAG-CAA
1 AAAAATCAAGTCAA
41943340 AAAAATCAAGTCAA
1 AAAAATCAAGTCAA
41943354 AA
1 AA
41943356 GCCACTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAAATCAAGTCAA
Found at i:41945509 original size:18 final size:18
Alignment explanation
Indices: 41945486--41945521 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
41945476 TAAGTGCACT
*
41945486 TTAATTATTTTTTTAAAA
1 TTAATTATTTTTTCAAAA
41945504 TTAATTATTTTTTCAAAA
1 TTAATTATTTTTTCAAAA
41945522 ATATTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
TTAATTATTTTTTCAAAA
Found at i:41946122 original size:20 final size:20
Alignment explanation
Indices: 41946097--41946136 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
41946087 ATGCTCCTTT
* *
41946097 GTACATCTATTTTTTTTCAA
1 GTACATATACTTTTTTTCAA
*
41946117 GTACATATGCTTTTTTTCAA
1 GTACATATACTTTTTTTCAA
41946137 AGCATTTTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.15, G:0.07, T:0.53
Consensus pattern (20 bp):
GTACATATACTTTTTTTCAA
Found at i:41955602 original size:56 final size:51
Alignment explanation
Indices: 41955524--41955714 Score: 208
Period size: 50 Copynumber: 3.7 Consensus size: 51
41955514 GGGAATGAGA
* * *
41955524 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATTGGGGCTATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATC--T-GAG--ATGAGAGG
41955580 TCCCACGTAAGACCAT-TCCTGGGACATGGCATTGGCA-CTGAGATGAGAGG
1 TCCCACGTAAGACCATGT-CTGGGACATGGCATTGGCATCTGAGATGAGAGG
* * **
41955630 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCATC-GATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATGAGAGG
* * * *
41955680 TCCCATGTAAGACCATATCTGGGATATGACATTGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGG
41955715 TAATATAGGA
Statistics
Matches: 120, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
50 80 0.67
51 2 0.02
52 2 0.02
53 1 0.01
55 2 0.02
56 33 0.28
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (51 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATGAGAGG
Found at i:41955703 original size:100 final size:101
Alignment explanation
Indices: 41955524--41955714 Score: 233
Period size: 100 Copynumber: 1.9 Consensus size: 101
41955514 GGGAATGAGA
* * * **
41955524 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATTGGGGCTATGAGAGGTCCCACGTA
1 TCCCACGTAAGACCATGTCTGGGACATGACATGGGCATC-----GGATATGAGAACTCCCACGTA
*
41955589 AGACCATTCCTGGGACATGGCATTGGCACTGAGATGAGAGG
61 AGACCATTCCTGGGACATGACATTGGCACTGAGATGAGAGG
* *
41955630 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCATC-GATATGAGAACTCCCATGTAAGACC
1 TCCCACGTAAGACCATGTCTGGGACATGACATGGGCATCGGATATGAGAACTCCCACGTAAGACC
*
41955694 ATAT-CTGGGATATGACATTGG
66 AT-TCCTGGGACATGACATTGG
41955715 TAATATAGGA
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
100 38 0.51
101 1 0.01
106 36 0.48
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (101 bp):
TCCCACGTAAGACCATGTCTGGGACATGACATGGGCATCGGATATGAGAACTCCCACGTAAGACC
ATTCCTGGGACATGACATTGGCACTGAGATGAGAGG
Found at i:41955991 original size:20 final size:20
Alignment explanation
Indices: 41955966--41956004 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
41955956 TGAGTTATTT
41955966 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
41955986 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
41956005 GAGGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:41963419 original size:10 final size:9
Alignment explanation
Indices: 41963402--41963430 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
41963392 TTTAATTATT
41963402 TTTTAAAAA
1 TTTTAAAAA
41963411 TTTTAAAAA
1 TTTTAAAAA
41963420 TTTTAAAAA
1 TTTTAAAAA
41963429 TT
1 TT
41963431 CAAAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:41963436 original size:18 final size:18
Alignment explanation
Indices: 41963402--41963437 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
41963392 TTTAATTATT
**
41963402 TTTTAAAAATTTTAAAAA
1 TTTTAAAAATTCAAAAAA
41963420 TTTTAAAAATTCAAAAAA
1 TTTTAAAAATTCAAAAAA
41963438 ATTATATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TTTTAAAAATTCAAAAAA
Found at i:41963452 original size:29 final size:28
Alignment explanation
Indices: 41963420--41963474 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
41963410 ATTTTAAAAA
*
41963420 TTTTAAAAATTCAAAAAAATTATATTATT
1 TTTTAAAAATTAAAAAAAATTA-ATTATT
* **
41963449 TTTTTAATTTTAAAAAAAATTAATTA
1 TTTTAAAAATTAAAAAAAATTAATTA
41963475 ATGCTAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 4 0.18
29 18 0.82
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
TTTTAAAAATTAAAAAAAATTAATTATT
Found at i:41971296 original size:22 final size:23
Alignment explanation
Indices: 41971262--41971305 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
41971252 CATCTAAGCA
41971262 TTCAACTAAACAT-CATTATAGG
1 TTCAACTAAACATCCATTATAGG
* *
41971284 TTCATCTATACATGCCATTATA
1 TTCAACTAAACAT-CCATTATA
41971306 ACTTTGGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
24 7 0.39
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (23 bp):
TTCAACTAAACATCCATTATAGG
Found at i:41984968 original size:128 final size:128
Alignment explanation
Indices: 41984740--41984996 Score: 514
Period size: 128 Copynumber: 2.0 Consensus size: 128
41984730 ATTGAGTTGT
41984740 TACACCCTCTAATGGTCTCTTGCACACTCACAAAGTATATTAGCTAACCCTTAGGCCTCATTCGG
1 TACACCCTCTAATGGTCTCTTGCACACTCACAAAGTATATTAGCTAACCCTTAGGCCTCATTCGG
41984805 CCTCTAAGGTCAATAAAAGACTCAAATTACACTTTTTATTGAATGTAAATCAAATTCTAAAAC
66 CCTCTAAGGTCAATAAAAGACTCAAATTACACTTTTTATTGAATGTAAATCAAATTCTAAAAC
41984868 TACACCCTCTAATGGTCTCTTGCACACTCACAAAGTATATTAGCTAACCCTTAGGCCTCATTCGG
1 TACACCCTCTAATGGTCTCTTGCACACTCACAAAGTATATTAGCTAACCCTTAGGCCTCATTCGG
41984933 CCTCTAAGGTCAATAAAAGACTCAAATTACACTTTTTATTGAATGTAAATCAAATTCTAAAAC
66 CCTCTAAGGTCAATAAAAGACTCAAATTACACTTTTTATTGAATGTAAATCAAATTCTAAAAC
41984996 T
1 T
41984997 TCAACTAAAA
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
128 129 1.00
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (128 bp):
TACACCCTCTAATGGTCTCTTGCACACTCACAAAGTATATTAGCTAACCCTTAGGCCTCATTCGG
CCTCTAAGGTCAATAAAAGACTCAAATTACACTTTTTATTGAATGTAAATCAAATTCTAAAAC
Found at i:41985737 original size:26 final size:26
Alignment explanation
Indices: 41985696--41985759 Score: 101
Period size: 26 Copynumber: 2.4 Consensus size: 26
41985686 TTTAAAAGTG
41985696 AGCCTTTTGTGGCTATCTCTAAAAGAA
1 AGCC-TTTGTGGCTATCTCTAAAAGAA
* *
41985723 AGCCTTTGTGGCTATCTCTGAAAGGA
1 AGCCTTTGTGGCTATCTCTAAAAGAA
41985749 AGCCTTTGTGG
1 AGCCTTTGTGG
41985760 AAATATTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 31 0.89
27 4 0.11
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (26 bp):
AGCCTTTGTGGCTATCTCTAAAAGAA
Found at i:41991726 original size:29 final size:29
Alignment explanation
Indices: 41991694--41991775 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
41991684 GGGATAGCTT
* *
41991694 CGACTATCGATTATGAAAAGGGAAGGTGA
1 CGACCATCAATTATGAAAAGGGAAGGTGA
* *
41991723 CGACCATCAATTATGGAAAGGGATGGTGA
1 CGACCATCAATTATGAAAAGGGAAGGTGA
*
41991752 CGACCATCAAACTATGAAAAGGGA
1 CGACCATC-AATTATGAAAAGGGA
41991776 TGGCTTTGGC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 33 0.72
30 13 0.28
ACGTcount: A:0.39, C:0.15, G:0.28, T:0.18
Consensus pattern (29 bp):
CGACCATCAATTATGAAAAGGGAAGGTGA
Done.