Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 84 of 198
Found at i:26901200 original size:18 final size:16
Alignment explanation
Indices: 26901177--26901212 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
26901167 AAATGGCTTT
26901177 TAAAAGTATATTATAAAA
1 TAAAAGT-TATTA-AAAA
26901195 TAAAAGTTATTAAAAA
1 TAAAAGTTATTAAAAA
26901211 TA
1 TA
26901213 TATTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
TAAAAGTTATTAAAAA
Found at i:26902173 original size:9 final size:9
Alignment explanation
Indices: 26902161--26902203 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
26902151 GAAAAAAATA
26902161 AAACAAAAC
1 AAACAAAAC
*
26902170 AAACAAAAAAA
1 AAAC--AAAAC
*
26902181 AAAGAAAAC
1 AAACAAAAC
26902190 AAACAAAAC
1 AAACAAAAC
26902199 AAACA
1 AAACA
26902204 GCTGCCCCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 21 0.75
11 7 0.25
ACGTcount: A:0.81, C:0.16, G:0.02, T:0.00
Consensus pattern (9 bp):
AAACAAAAC
Found at i:26902183 original size:20 final size:21
Alignment explanation
Indices: 26902153--26902197 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
26902143 CTGAAAATGA
26902153 AAAAAATAAAACAAAACAAAC
1 AAAAAATAAAACAAAACAAAC
*
26902174 AAAAAA-AAAAGAAAACAAAC
1 AAAAAATAAAACAAAACAAAC
26902194 AAAA
1 AAAA
26902198 CAAACAGCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.84, C:0.11, G:0.02, T:0.02
Consensus pattern (21 bp):
AAAAAATAAAACAAAACAAAC
Found at i:26902183 original size:25 final size:25
Alignment explanation
Indices: 26902152--26902201 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
26902142 GCTGAAAATG
*
26902152 AAAAAAATAAAACAAA-ACAAACAAA
1 AAAAAAAGAAAACAAACA-AAACAAA
26902177 AAAAAAAGAAAACAAACAAAACAAA
1 AAAAAAAGAAAACAAACAAAACAAA
26902202 CAGCTGCCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.02
Consensus pattern (25 bp):
AAAAAAAGAAAACAAACAAAACAAA
Found at i:26902670 original size:44 final size:44
Alignment explanation
Indices: 26902622--26902726 Score: 129
Period size: 44 Copynumber: 2.4 Consensus size: 44
26902612 CCTTTATTTT
* * *
26902622 AATCTGTTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTAGCTTC
* * * *
26902666 AATCTGCTCCGCTGTAATCTTAGGGAGATAAGATTTCTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTAGCTTC
* *
26902710 AATCTACTCCACCGTAA
1 AATCTGCTCCACTGTAA
26902727 CAGTAGGGAG
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTAGCTTC
Found at i:26902869 original size:44 final size:44
Alignment explanation
Indices: 26902772--26903107 Score: 138
Period size: 44 Copynumber: 7.7 Consensus size: 44
26902762 AATTCTTCGG
* * * ***
26902772 TCTATTCCACTGTAATCTCAGGGAGATAACA-CC-TGA-TGCGA
1 TCTACTCCACTGTAATCTCAGAGAGATAAGATCCTTGATTTTAA
* *
26902813 TCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAA
1 TCTACTCCACTGTAATC-TCAGAGAGATAAGATCCTTGATTTTAA
* * * * * *
26902857 TCTATTCCACTGTAATCTCAGGGAAATAGGATTACC--GACTTCAA
1 TCTACTCCACTGTAATCTCAGAGAGATAAGA-T-CCTTGATTTTAA
** ** * **
26902901 TCTGTTCTGCTGTAATCTCAGAGAGATAAGAT-CTGTAATTCTTCGG
1 TCTACTCCACTGTAATCTCAGAGAGATAAGATCCT-TGATT-TT-AA
* * * * * *
26902947 TCTATTCCACCGTAATCTCAGGGCGATAAGA-CC-TGA-TGTGA
1 TCTACTCCACTGTAATCTCAGAGAGATAAGATCCTTGATTTTAA
* **
26902988 TCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTTTTTTAA
1 TCTACTCCACTGTAATC-TCAGAGAGATAAGATCCTTGATTTTAA
* * * * * * ** *
26903032 TCTGCTCCACTGTAATATCAGGGAAATAGGATTAC-TGGCTTCAA
1 TCTACTCCACTGTAATCTCAGAGAGATAAGA-TCCTTGATTTTAA
* * *
26903076 TCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
1 TCTACTCCACTGTAATCTCAGAGAGATAAGAT
26903108 TTCTGGCTTC
Statistics
Matches: 216, Mismatches: 60, Indels: 36
0.69 0.19 0.12
Matches are distributed among these distances:
40 2 0.01
41 51 0.24
42 5 0.02
43 6 0.03
44 119 0.55
45 5 0.02
46 28 0.13
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
TCTACTCCACTGTAATCTCAGAGAGATAAGATCCTTGATTTTAA
Found at i:26903055 original size:175 final size:175
Alignment explanation
Indices: 26902762--26903107 Score: 575
Period size: 175 Copynumber: 2.0 Consensus size: 175
26902752 TTCGATTAGG
*
26902762 AATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAACACCTGATGCGATCTACTCTACTGTA
1 AATTCTTCGGTCTATTCCACCGTAATCTCAGGGAGATAACACCTGATGCGATCTACTCTACTGTA
* *
26902827 ACTTCAGAGAGATAAGATCCTTTATTTTAATCTATTCCACTGTAATCTCAGGGAAATAGGATTAC
66 ACTTCAGAGAGATAAGATCCTTTATTTTAATCTACTCCACTGTAATATCAGGGAAATAGGATTAC
* *
26902892 CGACTTCAATCTGTTCTGCTGTAATCTCAGAGAGATAAGATCTGT
131 CGACTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGATCTGT
* * *
26902937 AATTCTTCGGTCTATTCCACCGTAATCTCAGGGCGATAAGACCTGATGTGATCTACTCTACTGTA
1 AATTCTTCGGTCTATTCCACCGTAATCTCAGGGAGATAACACCTGATGCGATCTACTCTACTGTA
* *
26903002 ACTTCAGAGAGATAAGATCCTTTTTTTTAATCTGCTCCACTGTAATATCAGGGAAATAGGATTAC
66 ACTTCAGAGAGATAAGATCCTTTATTTTAATCTACTCCACTGTAATATCAGGGAAATAGGATTAC
* * *
26903067 TGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
131 CGACTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGAT
26903108 TTCTGGCTTC
Statistics
Matches: 158, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
175 158 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (175 bp):
AATTCTTCGGTCTATTCCACCGTAATCTCAGGGAGATAACACCTGATGCGATCTACTCTACTGTA
ACTTCAGAGAGATAAGATCCTTTATTTTAATCTACTCCACTGTAATATCAGGGAAATAGGATTAC
CGACTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGATCTGT
Found at i:26903114 original size:44 final size:44
Alignment explanation
Indices: 26903030--26903128 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 44
26903020 CCTTTTTTTT
*
26903030 AATCTGCTCCACTGTAATATCAGGGAAATAGGATTACTGGCTTC
1 AATCTGCTCCACTGTAATATCAGGGAAATAAGATTACTGGCTTC
* * * *
26903074 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATATCAGGGAAATAAGATTACTGGCTTC
*
26903118 AACCTGCTCCA
1 AATCTGCTCCA
26903129 TCGTAACAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATATCAGGGAAATAAGATTACTGGCTTC
Found at i:26903237 original size:46 final size:46
Alignment explanation
Indices: 26903170--26903260 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
26903160 TCCGATTAGG
**
26903170 AATTCTTCGGTCTATTCCACTGTAATCTTAAGGAGATAAGACCTGT
1 AATTCTTCGGTCTATTCCACTGTAATCCCAAGGAGATAAGACCTGT
* *
26903216 AATTCTTTGGTCTATTCCACTGTAATCCCAGGGAGATAAGACCTG
1 AATTCTTCGGTCTATTCCACTGTAATCCCAAGGAGATAAGACCTG
26903261 ATGCGATCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (46 bp):
AATTCTTCGGTCTATTCCACTGTAATCCCAAGGAGATAAGACCTGT
Found at i:26903334 original size:85 final size:85
Alignment explanation
Indices: 26903230--26903501 Score: 305
Period size: 88 Copynumber: 3.1 Consensus size: 85
26903220 CTTTGGTCTA
**
26903230 TTCCACTGTAATCCCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
1 TTCCACTGTAATCTTAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
26903295 AGATCCTTTATTTTAATCCG
66 AGATCCTTTATTTTAATCCG
* * * * * * * **
26903315 TTCCACTGTAATCTTAGGGAAATAGGATTACCGGCTTCAATCTGCTCCGCTGTAA-TCTCAGAGA
1 TTCCACTGTAATCTTAGGGAGATA--A-GACCTGATGCGATCTACTCTACTGTAACT-TCAGAGA
* * **
26903379 GATAAGAT-CTGTAATTCTTCAGTCTA
62 GATAAGATCCT-TTATT-TT-AATCCG
* * *
26903405 TTCCACTGTAATCTTGGGGGGATAAGACCTGATGCGATCTACTCTACTGTAACTTTAGAGAGATA
1 TTCCACTGTAATCTTAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
26903470 AGATCCTTTATTTTAATCCG
66 AGATCCTTTATTTTAATCCG
26903490 TTCCACTGTAAT
1 TTCCACTGTAAT
26903502 ATCAGGGAAA
Statistics
Matches: 147, Mismatches: 31, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
85 36 0.24
86 2 0.01
87 41 0.28
88 42 0.29
89 2 0.01
90 24 0.16
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (85 bp):
TTCCACTGTAATCTTAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
AGATCCTTTATTTTAATCCG
Found at i:26903372 original size:408 final size:407
Alignment explanation
Indices: 26902518--26903385 Score: 1079
Period size: 408 Copynumber: 2.1 Consensus size: 407
26902508 GCCTGGGAAG
** * * *
26902518 ATAAGATCTGTAATTCTTCAGTCTATTCCACCGTAATCTCAAGGAGATAAGACCTGATGCGATCT
1 ATAAGA-CTGTAAGGCTTCAATCTACTCCACCGTAATCTCAGGGAGATAAGACCTGATGCGATCT
* *
26902583 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGTTCCACTGTAATCTCAGGGA
65 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATATCAGGGA
* *
26902648 AATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGATTTCTAGCTTCAAT
130 AATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAAC
*
26902713 CTACTCCACCGTAACAGTAGGGAGATAAGATTCACCATTTTCGATTAGGAATTCTTCGGTCTATT
195 CTACTCCACCGTAACAGTAGGGAGATAAGATTCACCATTTCCGATTAGGAATTCTTCGGTCTATT
* * *
26902778 CCACTGTAATCTCAGGGAGATAACACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAG
260 CCACTGTAATCTCAAGGAGATAACACCTGATGCGATCTACTCCACTGTAACTCCAGAGAGATAAG
* ** * * * *
26902843 ATCCTTTATTTTAATCTATTCCACTGTAATCTCAGGGAAATAGGATTACCGACTTCAATCTGTTC
325 ATCCTTGATTGCAATCTACTCCACTGTAATCTCAGAGAAATAAGATTACCGACTTCAATCCGTTC
** *
26902908 TGCTGTAATCTCAGAGAG
390 CACTGTAATCTCAGAGAA
** ** * * *
26902926 ATAAGATCTGTAATTCTTCGGTCTATTCCACCGTAATCTCAGGGCGATAAGACCTGATGTGATCT
1 ATAAGA-CTGTAAGGCTTCAATCTACTCCACCGTAATCTCAGGGAGATAAGACCTGATGCGATCT
*
26902991 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTTTTTTAATCTGCTCCACTGTAATATCAGGGA
65 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATATCAGGGA
*
26903056 AATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAAC
130 AATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAAC
* *
26903121 CTGCTCCATCGTAACAGTAGGGAGATAAGATTCACCATTTCCGATTAGGAATTCTTCGGTCTATT
195 CTACTCCACCGTAACAGTAGGGAGATAAGATTCACCATTTCCGATTAGGAATTCTTCGGTCTATT
* * * * * *
26903186 CCACTGTAATCTTAAGGAGATAAGACCTGTAATTCTTTGGTCTATTCCACTGTAA-TCCCAGGGA
260 CCACTGTAATCTCAAGGAGATAACACCTG--ATGC---GATCTACTCCACTGTAACT-CCAGAGA
* * * * * *
26903250 GATAAGA-CC-TGA-TGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGA-T-CCTTTATTTT
319 GATAAGATCCTTGATTGCAATCTACTCCACTGTAATC-TCAGAGAAATAAGATTACC--GACTTC
* *
26903309 AATCCGTTCCACTGTAATCTTAGGGAA
381 AATCCGTTCCACTGTAATCTCAGAGAA
* * * * * *
26903336 ATAGGA-T-TACCGGCTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGA
1 ATAAGACTGTA-AGGCTTCAATCTACTCCACCGTAATCTCAGGGAGATAAGA
26903386 TCTGTAATTC
Statistics
Matches: 398, Mismatches: 52, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
407 2 0.01
408 305 0.77
409 2 0.01
410 58 0.15
411 2 0.01
412 3 0.01
413 26 0.07
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (407 bp):
ATAAGACTGTAAGGCTTCAATCTACTCCACCGTAATCTCAGGGAGATAAGACCTGATGCGATCTA
CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATATCAGGGAA
ATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAACC
TACTCCACCGTAACAGTAGGGAGATAAGATTCACCATTTCCGATTAGGAATTCTTCGGTCTATTC
CACTGTAATCTCAAGGAGATAACACCTGATGCGATCTACTCCACTGTAACTCCAGAGAGATAAGA
TCCTTGATTGCAATCTACTCCACTGTAATCTCAGAGAAATAAGATTACCGACTTCAATCCGTTCC
ACTGTAATCTCAGAGAA
Found at i:26903383 original size:88 final size:88
Alignment explanation
Indices: 26903266--26903544 Score: 289
Period size: 88 Copynumber: 3.2 Consensus size: 88
26903256 ACCTGATGCG
* *
26903266 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTTA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTTA
26903331 GGGAAATAGGATTACCGGCTTCA
66 GGGAAATAGGATTACCGGCTTCA
* * * **
26903354 ATCTGCTCCGCTGTAA-TCTCAGAGAGATAAGAT-CTGTAATTCTTCAGTCTATTCCACTGTAAT
1 ATCTGCTCCACTGTAACT-TCAGAGAGATAAGATCCT-TTATT-TT-AATCCGTTCCACTGTAAT
* ** * * * * *
26903417 CTTGGGGGGATA--A-GACCTGATGCG
62 CTTAGGGAAATAGGATTACCGGCTTCA
* * * * *
26903441 ATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATATCA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTTA
*
26903506 GGGAAATAGGATTACTGGCTTCA
66 GGGAAATAGGATTACCGGCTTCA
*
26903529 ATCTGCTCCCCTGTAA
1 ATCTGCTCCACTGTAA
26903545 TCTCAAGGAG
Statistics
Matches: 145, Mismatches: 37, Indels: 18
0.73 0.19 0.09
Matches are distributed among these distances:
85 22 0.15
86 2 0.01
87 41 0.28
88 54 0.37
89 2 0.01
90 24 0.17
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (88 bp):
ATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTTA
GGGAAATAGGATTACCGGCTTCA
Found at i:26903414 original size:46 final size:46
Alignment explanation
Indices: 26903170--26903418 Score: 137
Period size: 46 Copynumber: 5.6 Consensus size: 46
26903160 TCCGATTAGG
* *
26903170 AATTCTTCGGTCTATTCCACTGTAATCTTA-AGGAGATAAGACCTGT
1 AATTCTTCAGTCTATTCCACTGTAATCTCAGA-GAGATAAGACCTGT
** * *
26903216 AATTCTTTGGTCTATTCCACTGTAATCCCAGGGAGATAAGACCTG-
1 AATTCTTCAGTCTATTCCACTGTAATCTCAGAGAGATAAGACCTGT
* * * *
26903261 -ATGC--GA-TCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-T
1 AATTCTTCAGTCTATTCCACTGTAATC-TCAGAGAGATAAGA-CCTGT
* * ** * * * *
26903303 TATT-TT-AATCCGTTCCACTGTAATCTTAGGGAAATAGGA--T-T
1 AATTCTTCAGTCTATTCCACTGTAATCTCAGAGAGATAAGACCTGT
*** * ** * *
26903344 ACCGGCTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGATCTGT
1 A-ATTCTTCAGTCTATTCCACTGTAATCTCAGAGAGATAAGACCTGT
26903391 AATTCTTCAGTCTATTCCACTGTAATCT
1 AATTCTTCAGTCTATTCCACTGTAATCT
26903419 TGGGGGGATA
Statistics
Matches: 150, Mismatches: 38, Indels: 30
0.69 0.17 0.14
Matches are distributed among these distances:
40 1 0.01
41 27 0.18
42 3 0.02
43 5 0.03
44 50 0.33
45 1 0.01
46 61 0.41
47 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (46 bp):
AATTCTTCAGTCTATTCCACTGTAATCTCAGAGAGATAAGACCTGT
Found at i:26903470 original size:87 final size:86
Alignment explanation
Indices: 26903188--26903474 Score: 285
Period size: 87 Copynumber: 3.3 Consensus size: 86
26903178 GGTCTATTCC
* * * **
26903188 ACTGTAATCTTAAG-GAGATAAGACCTGTAATTCTTTGGTCTATTCCACTGTAATCCCAGGGAGA
1 ACTGTAA-CTTCAGAGAGATAAGATCTGTAATTC-TTAGTCTATTCCACTGTAATCTTAGGGAGA
26903252 TAAGACCTGATGCGATCTACTCT
64 TAAGACCTGATGCGATCTACTCT
* * ** *
26903275 ACTGTAACTTCAGAGAGATAAGATCCT-TTATT-TTAATCCGTTCCACTGTAATCTTAGGGAAAT
1 ACTGTAACTTCAGAGAGATAAGAT-CTGTAATTCTTAGTCTATTCCACTGTAATCTTAGGGAGAT
* * * * * * *
26903338 AGGATTACCGGCTTCAATCTGCTCC
65 A--A-GACCTGATGCGATCTACTCT
* * *
26903363 GCTGTAA-TCTCAGAGAGATAAGATCTGTAATTCTTCAGTCTATTCCACTGTAATCTTGGGGGGA
1 ACTGTAACT-TCAGAGAGATAAGATCTGTAATTCTT-AGTCTATTCCACTGTAATCTTAGGGAGA
26903427 TAAGACCTGATGCGATCTACTCT
64 TAAGACCTGATGCGATCTACTCT
*
26903450 ACTGTAACTTTAGAGAGATAAGATC
1 ACTGTAACTTCAGAGAGATAAGATC
26903475 CTTTATTTTA
Statistics
Matches: 156, Mismatches: 34, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
85 25 0.16
86 5 0.03
87 58 0.37
88 42 0.27
89 2 0.01
90 24 0.15
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (86 bp):
ACTGTAACTTCAGAGAGATAAGATCTGTAATTCTTAGTCTATTCCACTGTAATCTTAGGGAGATA
AGACCTGATGCGATCTACTCT
Found at i:26903480 original size:175 final size:175
Alignment explanation
Indices: 26903189--26903584 Score: 650
Period size: 175 Copynumber: 2.3 Consensus size: 175
26903179 GTCTATTCCA
* * *
26903189 CTGTAATCTTAAGGAGATAAGACCTGTAATTCTTTGGTCTATTCCACTGTAATCCCAGGGAGATA
1 CTGTAATCTCAAGGAGATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCCCAGGGAGATA
26903254 AGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCC
66 AGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCC
* * *
26903319 ACTGTAATCTTAGGGAAATAGGATTACCGGCTTCAATCTGCTCCG
131 ACTGTAATATCAGGGAAATAGGATTACCGGCTTCAATCTGCTCCC
* *** *
26903364 CTGTAATCTC-AGAGAGATAAGATCTGTAATTCTTCAGTCTATTCCACTGTAATCTTGGGGGGAT
1 CTGTAATCTCAAG-GAGATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCCCAGGGAGAT
*
26903428 AAGACCTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGTTC
65 AAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTC
*
26903493 CACTGTAATATCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCC
130 CACTGTAATATCAGGGAAATAGGATTACCGGCTTCAATCTGCTCCC
*
26903539 CTGTAATCTCAAGGAGAAAAGATCTGTAATTCTTCGGTCTATTCCA
1 CTGTAATCTCAAGGAGATAAGATCTGTAATTCTTCGGTCTATTCCA
26903585 TTGCTGACTA
Statistics
Matches: 204, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
174 2 0.01
175 200 0.98
176 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (175 bp):
CTGTAATCTCAAGGAGATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCCCAGGGAGATA
AGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCC
ACTGTAATATCAGGGAAATAGGATTACCGGCTTCAATCTGCTCCC
Found at i:26916273 original size:18 final size:16
Alignment explanation
Indices: 26916250--26916285 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
26916240 AAATGACTTT
26916250 TAAAAGTATATTATAAAA
1 TAAAAGT-TATTA-AAAA
26916268 TAAAAGTTATTAAAAA
1 TAAAAGTTATTAAAAA
26916284 TA
1 TA
26916286 TATTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
TAAAAGTTATTAAAAA
Found at i:26917602 original size:6 final size:7
Alignment explanation
Indices: 26917583--26917625 Score: 50
Period size: 8 Copynumber: 5.7 Consensus size: 7
26917573 TAAAAAGGAC
26917583 TATTTTT
1 TATTTTT
26917590 TATTTTT
1 TATTTTT
26917597 TATTTTTT
1 TA-TTTTT
26917605 TATATTTT
1 TAT-TTTT
*
26917613 TGTTTATT
1 TATTT-TT
26917621 TATTT
1 TATTT
26917626 CTGATTTGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
7 12 0.39
8 19 0.61
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.81
Consensus pattern (7 bp):
TATTTTT
Found at i:26917950 original size:12 final size:12
Alignment explanation
Indices: 26917933--26917962 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
26917923 ACAAAATCAG
26917933 AATTTAATTTCC
1 AATTTAATTTCC
*
26917945 AATTTAATTTCT
1 AATTTAATTTCC
26917957 AATTTA
1 AATTTA
26917963 TTTAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTAATTTCC
Found at i:26920086 original size:24 final size:24
Alignment explanation
Indices: 26920052--26920112 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
26920042 GCTGCCGAAT
* *
26920052 TTTAAAGGATGTATAATGCTTTCC
1 TTTAAATGATGTATAATGCTCTCC
*
26920076 TTTAAATGATGTATAATGCTCTCT
1 TTTAAATGATGTATAATGCTCTCC
*
26920100 TTTAATTGATGTA
1 TTTAAATGATGTA
26920113 ACAACCCCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.46
Consensus pattern (24 bp):
TTTAAATGATGTATAATGCTCTCC
Found at i:26927324 original size:27 final size:27
Alignment explanation
Indices: 26927287--26927376 Score: 94
Period size: 27 Copynumber: 3.3 Consensus size: 27
26927277 AAAGGTTGTT
*
26927287 AAATGATCGAAATATCCTCGATGGGTA
1 AAATGACCGAAATATCCTCGATGGGTA
*
26927314 AAATGACCGAAATACTCC-CGAAGGGTA
1 AAATGACCGAAATA-TCCTCGATGGGTA
* * * *
26927341 AAATAATCGAAATA-CCTCTATAAGGTA
1 AAATGACCGAAATATCCTCGAT-GGGTA
26927368 AAATGACCG
1 AAATGACCG
26927377 TAATGCCCCT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
25 2 0.04
26 2 0.04
27 44 0.86
28 3 0.06
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (27 bp):
AAATGACCGAAATATCCTCGATGGGTA
Found at i:26934600 original size:14 final size:14
Alignment explanation
Indices: 26934583--26934621 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
26934573 CTGAAAAAAG
*
26934583 TTCGTAAAAAATAT
1 TTCGTAAAAAATAA
26934597 TTCGTAAAAAA-AA
1 TTCGTAAAAAATAA
26934610 TTCGTAAAAAAT
1 TTCGTAAAAAAT
26934622 TCGTGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (14 bp):
TTCGTAAAAAATAA
Found at i:26934605 original size:13 final size:12
Alignment explanation
Indices: 26934576--26934633 Score: 64
Period size: 11 Copynumber: 4.6 Consensus size: 12
26934566 GTATTAGCTG
*
26934576 AAAAAAGTTCGT
1 AAAAAAATTCGT
26934588 AAAAAATATTTCGT
1 AAAAAA-A-TTCGT
26934602 AAAAAAAATTCGT
1 -AAAAAAATTCGT
26934615 -AAAAAATTCGT
1 AAAAAAATTCGT
26934626 GAAAAAAA
1 -AAAAAAA
26934634 AAAGAAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
11 11 0.28
12 6 0.15
13 11 0.28
14 6 0.15
15 6 0.15
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.24
Consensus pattern (12 bp):
AAAAAAATTCGT
Found at i:26934632 original size:14 final size:13
Alignment explanation
Indices: 26934576--26934634 Score: 68
Period size: 14 Copynumber: 4.5 Consensus size: 13
26934566 GTATTAGCTG
*
26934576 AAAAAAGTTCGTA
1 AAAAAAATTCGTA
*
26934589 AAAAATATTTCGTA
1 AAAAA-AATTCGTA
26934603 AAAAAAATTCGT-
1 AAAAAAATTCGTA
26934615 -AAAAAATTCGTGA
1 AAAAAAATTCGT-A
26934628 AAAAAAA
1 AAAAAAA
26934635 AAGAAATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
11 11 0.28
13 11 0.28
14 18 0.45
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.24
Consensus pattern (13 bp):
AAAAAAATTCGTA
Found at i:26938104 original size:16 final size:16
Alignment explanation
Indices: 26938083--26938116 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26938073 ATATGGGAGC
26938083 ATACATGAATGCCTGG
1 ATACATGAATGCCTGG
* *
26938099 ATACATGGATGGCTGG
1 ATACATGAATGCCTGG
26938115 AT
1 AT
26938117 TCGTGGATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (16 bp):
ATACATGAATGCCTGG
Found at i:26946400 original size:28 final size:28
Alignment explanation
Indices: 26946363--26946423 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
26946353 GTTTTATGGA
26946363 ATGT-ATGAATTCAATAGCTTTATGTTC
1 ATGTAATGAATTCAATAGCTTTATGTTC
*
26946390 TTGTAATGAATTCAATAGCTTTATGTTC
1 ATGTAATGAATTCAATAGCTTTATGTTC
26946418 ATGTAA
1 ATGTAA
26946424 ACTATCTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 3 0.10
28 28 0.90
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (28 bp):
ATGTAATGAATTCAATAGCTTTATGTTC
Found at i:26958239 original size:217 final size:218
Alignment explanation
Indices: 26957885--26958355 Score: 617
Period size: 217 Copynumber: 2.2 Consensus size: 218
26957875 TTATTTAGTA
* * * * * *
26957885 TGCCCCACTGCAATTTCAGGGGGATAAGACTTGCTTTCATGAGTCTGCTCCACTGCAACTTCAAG
1 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACATGAGTCTGCTCCACTACAACTTCAAG
* * **
26957950 GAGATAAGACTCGATGTGATCTACTCTACTGCAACTTCAAAGAGATAAGATATGTGGTTTTAATC
66 GAGATAAGACTAGATGTAATCTACTCTACTGCAACTTCAAAGAGATAAGATATAAGGTTTTAATC
* * * * ** * *
26958015 CACTCCACTGCAACATCAGGGAGACATGATTTGTTTA-TTTAGTATGCCCCACTGCACCTTCAGG
131 CACTCCACTGCAACATCAGGAAGACAGGA-TT-ATCACTTTAACATGCCCCACTACAACTTCAGG
26958079 GAGATAAGATTCGCCATCTTCAGTC
194 GAGATAAGATTCGCCATCTTCAGTC
* *
26958104 TGCCTCACTGCAACATT-AGGAGGATAAGACTTGATTAC-TTAGTCTGCTCCACTACAACTTCAG
1 TGCCTCACTGCAAC-TTCAGGAGGATAAGACTTGATTACATGAGTCTGCTCCACTACAACTTCAA
* * *
26958167 GGAGATAAGACTAGATGTAATCTGCTCT-CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAAT
65 GGAGATAAGACTAGATGTAATCTACTCTACTGCAACTTCAAAGAGATAAGATATAAGGTTTTAAT
* * * **
26958231 CCACTCCACTGCAACTTCAGGAAGATAGGATTATCAGCTTTAACCTGCTTCACTACAACTTCAGG
130 CCACTCCACTGCAACATCAGGAAGACAGGATTATCA-CTTTAACATGCCCCACTACAACTTCAGG
*
26958296 GAGATAAGATTTGCCATCTTCAGTC
194 GAGATAAGATTCGCCATCTTCAGTC
26958321 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGAT
1 TGCCTCACTGCAACTTCAGGAGGATAAGACTTGAT
26958356 GCGATATGCT
Statistics
Matches: 219, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
215 2 0.01
216 4 0.02
217 134 0.61
218 47 0.21
219 30 0.14
220 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (218 bp):
TGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACATGAGTCTGCTCCACTACAACTTCAAG
GAGATAAGACTAGATGTAATCTACTCTACTGCAACTTCAAAGAGATAAGATATAAGGTTTTAATC
CACTCCACTGCAACATCAGGAAGACAGGATTATCACTTTAACATGCCCCACTACAACTTCAGGGA
GATAAGATTCGCCATCTTCAGTC
Found at i:26958240 original size:84 final size:84
Alignment explanation
Indices: 26958150--26958430 Score: 278
Period size: 84 Copynumber: 3.3 Consensus size: 84
26958140 ACTTAGTCTG
* *
26958150 CTCCACTACAACTTCAGGGAGATAAGACTAGATGTAATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGAAGATAAGACTAGATGTAATCTGCTCTCTGCAACTTCAGAGAGATAA
26958215 GATCTAAGGTTTTAATCCA
66 GATCTAAGGTTTTAATCCA
* * * * * * * *
26958234 CTCCACTGCAACTTCAGGAAGATAGGATTATCAGCTTTAACCTGCTTCACTACAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGAAGATAAGA--CT-AGATGTAATCTGC-TCTCTGCAACTTCAGAGAG
* **** * *
26958299 ATAAGATTTGCCATCTTCAGTCTGC-
62 ATAAGATCTAAGGT-TTTAATC--CA
* * ** *
26958324 CT-CACTGCAACTTCAGGAGGATAAGACTTGATGCGATATGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGAAGATAAGACTAGATGTAATCTGCTCTCTGCAACTTCAGAGAGATAA
*
26958388 GATCCAAGGTTTTAATCCA
66 GATCTAAGGTTTTAATCCA
26958407 CTCCACTGCAACTTCAGGAAGATA
1 CTCCACTGCAACTTCAGGAAGATA
26958431 GGATTATCGG
Statistics
Matches: 149, Mismatches: 39, Indels: 18
0.72 0.19 0.09
Matches are distributed among these distances:
82 1 0.01
83 2 0.01
84 49 0.33
85 24 0.16
86 7 0.05
87 11 0.07
88 25 0.17
89 27 0.18
90 2 0.01
91 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (84 bp):
CTCCACTGCAACTTCAGGAAGATAAGACTAGATGTAATCTGCTCTCTGCAACTTCAGAGAGATAA
GATCTAAGGTTTTAATCCA
Found at i:26958418 original size:217 final size:215
Alignment explanation
Indices: 26957972--26958862 Score: 776
Period size: 217 Copynumber: 4.1 Consensus size: 215
26957962 GATGTGATCT
* * ** * * *
26957972 ACTCTACTGCAACTTCAAAGAGATAAGATATGTGGTTTTAATCCACTCCACTGCAACATCAGGGA
1 ACTCCACTGCAACTTCAGAGAGATAAGAT-TACGGCTTTAATCCACTCCACTGCAACTTCAGGAA
* * * * ** * *
26958037 GACATGATTTGT-TTATTTAGTATGCCCCACTGCACCTTCAGG-GAGATAAGA-TTCGCCAT-CT
65 GATAAGATTT-TCATCTTTAGCCTGCCTCACTGCAACTTCAGGAG-GATAAGACTT-G-CATACT
* * * * *
26958098 TCAGTCTGC-CTCACTGCAACATT-A-GGAGGATAAGACTTGATTACTTAGTCTGCTCCACTACA
126 T-AGTCTGCTC-CACTGCAAC-TTCAGGGA-GATAAGACTAGA-TGC-GA-TCTGCT-CTCTGCA
* * * * *
26958160 ACTTCAGGGAGATAAGA--CTA-GATGTAATCT
183 ACTTCAGAGAGATAAGATCCAAGGTTTTAATCC
* * * *
26958190 GCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGAA
1 ACTCCACTGCAACTTCAGAGAGATAAGAT-TACGGCTTTAATCCACTCCACTGCAACTTCAGGAA
* * * * * * *
26958254 GATAGGATTATCAGCTTTAACCTGCTTCACTACAACTTCAGG-GAGATAAGATTTGCCAT-CTTC
65 GATAAGATTTTCATCTTTAGCCTGCCTCACTGCAACTTCAGGAG-GATAAGACTTG-CATACTT-
* *
26958317 AGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGATGCGATATGCTCTCTGCAACTTCAG
127 AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAG
26958380 AGAGATAAGATCCAAGGTTTTAATCC
190 AGAGATAAGATCCAAGGTTTTAATCC
* * * *
26958406 ACTCCACTGCAACTTCAG-GAAGATAGGATTATCGGCTTTAA-CCTGCTCCACTACAACTTTA-G
1 ACTCCACTGCAACTTCAGAG-AGATAAGATTA-CGGCTTTAATCC-ACTCCACTGCAACTTCAGG
* * * * *
26958468 AGAGATAAGATTTGCCATCTTCAGTCC-GCCTCACTGCAATTTCAGGAGGATAAGACTTGCTTGC
63 A-AGATAAGATTT-TCATCTTTAG-CCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATAC
* * *
26958532 TTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAAATGCGATCTGCTCTCTGTAACTTCAG
125 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAG
*** *
26958597 AGAGATAAGATCTGTGATTTTAATCC
190 AGAGATAAGATCCAAGGTTTTAATCC
* * * * * ** * *
26958623 GCTCCACTGCAACTTTAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAACCTCAGGGA
1 ACTCCACTGCAACTTCAGAGAGATAAGATT-ACGGCTTTAATCCACTCCACTGCAACTTCAGGAA
* *
26958688 GATAAGATTTGTCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAG
65 GATAAGATTT-TCATCTTTAGCCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATACTTAG
*
26958753 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAG
129 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
26958818 ATAAGATCCAAGGTTTTAATCC
194 ATAAGATCCAAGGTTTTAATCC
* * * *
26958840 TCTTCACTACAACTTCAGGGAGA
1 ACTCCACTGCAACTTCAGAGAGA
26958863 CAAGGCTTGG
Statistics
Matches: 568, Mismatches: 83, Indels: 45
0.82 0.12 0.06
Matches are distributed among these distances:
213 21 0.04
214 5 0.01
215 3 0.01
216 22 0.04
217 468 0.82
218 46 0.08
219 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (215 bp):
ACTCCACTGCAACTTCAGAGAGATAAGATTACGGCTTTAATCCACTCCACTGCAACTTCAGGAAG
ATAAGATTTTCATCTTTAGCCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCATACTTAGTC
TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
AAGATCCAAGGTTTTAATCC
Found at i:26958475 original size:390 final size:390
Alignment explanation
Indices: 26957889--26958743 Score: 1126
Period size: 390 Copynumber: 2.2 Consensus size: 390
26957879 TTAGTATGCC
* * * ** * *
26957889 CCACTGCAATTTCAGGGGGATAAGACTTGCTTTCATGAGTCTG-CTCCACTGCAACTTCAAGGA-
1 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT-CACTGCAACTTC-AGGAG
* * * ***
26957952 GATAAGACTCGATGTGATCTACTCTACTGCAACTTCAAAGAGATAAGATATGTGGTTTTAATCCA
64 GATAAGACTTGATGCGATATACTCTACTGCAACTTCAAAGAGATAAGATACAAGGTTTTAATCCA
* * * ** * * *
26958017 CTCCACTGCAACATCAGGGAGACATGATTTGTTTATTTAGTATGCCCCACTGCACCTTCAGGGAG
129 CTCCACTGCAACATCAGGAAGACAGGATTTG-TGATTTAACATGCCCCACTACAACTTCAGAGAG
*
26958082 ATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACATT-AGGAGGATAAGACTTGATTACTTAG
193 ATAAGATTCGCCATCTTCAGTCCGCCTCACTGCAA-ATTCAGGAGGATAAGACTTGATTACTTAG
* *
26958146 TCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGTAATCTGCTCTCTGCAACTTCAGAGAG
257 TCTGCTCCACTACAACTTCAGGGAGATAAGACTAAATGCAATCTGCTCTCTGCAACTTCAGAGAG
*
26958211 ATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCAGCTTTAACC
322 ATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCAGCTTTAACC
26958276 TGCT
387 TGCT
* *
26958280 TCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGA
1 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGA
* * *
26958345 TAAGACTTGATGCGATATGCTCT-CTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACT
66 TAAGACTTGATGCGATATACTCTACTGCAACTTCAAAGAGATAAGATACAAGGTTTTAATCCACT
* * * * * *
26958409 CCACTGCAACTTCAGGAAGATAGGATTATCG-GCTTTAACCTGCTCCACTACAACTTTAGAGAGA
131 CCACTGCAACATCAGGAAGACAGGATT-T-GTGATTTAACATGCCCCACTACAACTTCAGAGAGA
* * * *
26958473 TAAGATTTGCCATCTTCAGTCCGCCTCACTGCAATTTCAGGAGGATAAGACTTGCTTGCTTAGTC
194 TAAGATTCGCCATCTTCAGTCCGCCTCACTGCAAATTCAGGAGGATAAGACTTGATTACTTAGTC
* * * *
26958538 TGCTCCATTGCAACTTCAGGGAGATAAGACTAAATGCGATCTGCTCTCTGTAACTTCAGAGAGAT
259 TGCTCCACTACAACTTCAGGGAGATAAGACTAAATGCAATCTGCTCTCTGCAACTTCAGAGAGAT
** * * * * * *
26958603 AAGATCTGTGATTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGTCGGCTTTAATCTG
324 AAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCAGCTTTAACCTG
26958668 CT
389 CT
* * *
26958670 CCACTGCAACCTCAGGGAGATAAGATTTGTCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGA
1 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGA
26958735 TAAGACTTG
66 TAAGACTTG
26958744 CTTACTTAGT
Statistics
Matches: 402, Mismatches: 57, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
389 2 0.00
390 329 0.82
391 68 0.17
392 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (390 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGA
TAAGACTTGATGCGATATACTCTACTGCAACTTCAAAGAGATAAGATACAAGGTTTTAATCCACT
CCACTGCAACATCAGGAAGACAGGATTTGTGATTTAACATGCCCCACTACAACTTCAGAGAGATA
AGATTCGCCATCTTCAGTCCGCCTCACTGCAAATTCAGGAGGATAAGACTTGATTACTTAGTCTG
CTCCACTACAACTTCAGGGAGATAAGACTAAATGCAATCTGCTCTCTGCAACTTCAGAGAGATAA
GATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCAGCTTTAACCTGCT
Found at i:26958525 original size:173 final size:173
Alignment explanation
Indices: 26958153--26958526 Score: 624
Period size: 173 Copynumber: 2.2 Consensus size: 173
26958143 TAGTCTGCTC
* * * *
26958153 CACTACAACTTCAGG-GAGATAAGACTAGATGTAATCTGCTCTCTGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGGAG-GATAAGACTTGATGCAATATGCTCTCTGCAACTTCAGAGAGATAAGA
* *
26958217 TCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCAGCTTTAACCTGCTTC
65 TCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCAGCTTTAACCTGCTCC
* *
26958282 ACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
130 ACTACAACTTCAGAGAGATAAGATTTGCCATCTTCAGTCCGCCT
*
26958326 CACTGCAACTTCAGGAGGATAAGACTTGATGCGATATGCTCTCTGCAACTTCAGAGAGATAAGAT
1 CACTGCAACTTCAGGAGGATAAGACTTGATGCAATATGCTCTCTGCAACTTCAGAGAGATAAGAT
*
26958391 CCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCA
66 CCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCAGCTTTAACCTGCTCCA
*
26958456 CTACAACTTTAGAGAGATAAGATTTGCCATCTTCAGTCCGCCT
131 CTACAACTTCAGAGAGATAAGATTTGCCATCTTCAGTCCGCCT
*
26958499 CACTGCAATTTCAGGAGGATAAGACTTG
1 CACTGCAACTTCAGGAGGATAAGACTTG
26958527 CTTGCTTAGT
Statistics
Matches: 188, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
173 187 0.99
174 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (173 bp):
CACTGCAACTTCAGGAGGATAAGACTTGATGCAATATGCTCTCTGCAACTTCAGAGAGATAAGAT
CCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCAGCTTTAACCTGCTCCA
CTACAACTTCAGAGAGATAAGATTTGCCATCTTCAGTCCGCCT
Found at i:26958629 original size:173 final size:172
Alignment explanation
Indices: 26958153--26958652 Score: 523
Period size: 173 Copynumber: 2.9 Consensus size: 172
26958143 TAGTCTGCTC
* * ** *
26958153 CACTACAACTTCAGG-GAGATAAGACTAGATGTAATCTGCTCTCTGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGGAG-GATAAGACTTGATGCGATATGCTCTCTGCAACTTCAGAGAGATAAGA
* * ** * *
26958217 TCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATC-AGCTTTAACCTGCTT
65 TCCAA-GATGCAATCCACTCCACTGCAACTTCAGGAAGATAAGATTATCGA-CTTTAACCTGCTC
* *
26958281 CACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
128 CACTACAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCCGCCT
26958326 CACTGCAACTTCAGGAGGATAAGACTTGATGCGATATGCTCTCTGCAACTTCAGAGAGATAAGAT
1 CACTGCAACTTCAGGAGGATAAGACTTGATGCGATATGCTCTCTGCAACTTCAGAGAGATAAGAT
* ** * *
26958391 CCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCA
66 CCAA-GATGCAATCCACTCCACTGCAACTTCAGGAAGATAAGATTATCGACTTTAACCTGCTCCA
*
26958456 CTACAACTTTAGAGAGATAAGATTTGCCATCTTCAGTCCGCCT
130 CTACAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCCGCCT
* * * * *
26958499 CACTGCAATTTCAGGAGGATAAGACTTGCTTGCTTAGTCTGCTC-CATTGCAACTTCAGGGAGAT
1 CACTGCAACTTCAGGAGGATAAGACTTG-ATGC-GA-TATGCTCTC--TGCAACTTCAGAGAGAT
* * ** * * * *
26958563 AAGA-CTAA-ATGCGATCTGCT-CTCTGTAACTTCA-GAGAGATAAGATCTGT-GATTTTAATCC
61 AAGATCCAAGATGCAATCCACTCCACTGCAACTTCAGGA-AGATAAGAT-TATCGACTTTAA-CC
* *
26958623 -GCTCCACTGCAACTTTAGGGAGATAGGATT
123 TGCTCCACTACAACTTTAGGGAGATAAGATT
26958653 GTCGGCTTTA
Statistics
Matches: 285, Mismatches: 32, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
172 2 0.01
173 238 0.84
174 14 0.05
175 2 0.01
176 9 0.03
177 20 0.07
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (172 bp):
CACTGCAACTTCAGGAGGATAAGACTTGATGCGATATGCTCTCTGCAACTTCAGAGAGATAAGAT
CCAAGATGCAATCCACTCCACTGCAACTTCAGGAAGATAAGATTATCGACTTTAACCTGCTCCAC
TACAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCCGCCT
Found at i:26958725 original size:89 final size:88
Alignment explanation
Indices: 26957931--26958783 Score: 229
Period size: 89 Copynumber: 9.8 Consensus size: 88
26957921 TCATGAGTCT
* * * **
26957931 GCTCCACTGCAACTTCAAGGA-GATAAGAC-T-C-GA-TGTGATCTACTCTACTGCAACTTCAAA
1 GCTCCACTGCAACTTC-AGGAGGATAAGACTTGCTGACT-TAATCTGCTCCACTGCAACTTCAGG
* **
26957991 GAGATAAGATATGTGGTTTTAATCC
64 GAGATAAGATCTGTCATTTTAATCC
* * * * * * * * * * * *
26958016 ACTCCACTGCAACATCAGG-GAGACATGATTTGTTTATTTAGTATGCCCCACTGCACCTTCAGGG
1 GCTCCACTGCAACTTCAGGAG-GATAAGACTTGCTGACTTAATCTGCTCCACTGCAACTTCAGGG
* * * *
26958080 AGATAAGAT-TCGCCATCTTCAGTCT
65 AGATAAGATCT-GTCAT-TTTAATCC
* * * *
26958105 GC-CTCACTGCAACATT-AGGAGGATAAGACTTGATTACTTAGTCTGCTCCACTACAACTTCAGG
1 GCTC-CACTGCAAC-TTCAGGAGGATAAGACTTGCTGACTTAATCTGCTCCACTGCAACTTCAGG
* *
26958168 GAGATAAGA-CTAG--A-TGTAATCT
64 GAGATAAGATCT-GTCATTTTAATCC
* * ** **
26958190 GCT-CTCTGCAACTTCA-GAGAGATAAGATCTAAG--GTTTTAATCCACTCCACTGCAACTTCAG
1 GCTCCACTGCAACTTCAGGAG-GATAAGA-CT-TGCTGACTTAATCTGCTCCACTGCAACTTCAG
* * * *
26958251 GAAGATAGGAT-TATCAGCTTTAA-CC
63 GGAGATAAGATCTGTCA-TTTTAATCC
* * * * *
26958276 TGCTTCACTACAACTTCAGG-GAGATAAGATTTGC-CATCTTCAGTCTGC-CTCACTGCAACTTC
1 -GCTCCACTGCAACTTCAGGAG-GATAAGACTTGCTGA-CTT-AATCTGCTC-CACTGCAACTTC
* ***
26958338 A-GGAGGATAAGA-CT-TGATGCGATAT--
61 AGGGA-GATAAGATCTGTCATTTTA-ATCC
* * * ** **
26958363 GCT-CTCTGCAACTTCA-GAGAGATAAGA--TCCAAGGTTTTAATCCACTCCACTGCAACTTCAG
1 GCTCCACTGCAACTTCAGGAG-GATAAGACTTGC--TGACTTAATCTGCTCCACTGCAACTTCAG
* * * **
26958424 GAAGATAGGAT-TATCGGCTTTAA-CC
63 GGAGATAAGATCTGTC-ATTTTAATCC
* * * * * * *
26958449 TGCTCCACTACAACTTTA-GAGAGATAAGATTTGC-CATCTTCAGTCCGC-CTCACTGCAATTTC
1 -GCTCCACTGCAACTTCAGGAG-GATAAGACTTGCTGA-CTT-AATCTGCTC-CACTGCAACTTC
* *
26958511 A-GGAGGATAAGA-CT-TGC-TTGCTTAGTCT
61 AGGGA-GATAAGATCTGT-CATT--TTAATCC
* *** * * * *
26958539 GCTCCATTGCAACTTCAGG-GAGATAAGACTAAATG-C--GATCTGCT-CTCTGTAACTTCAGAG
1 GCTCCACTGCAACTTCAGGAG-GATAAGACTTGCTGACTTAATCTGCTCCACTGCAACTTCAGGG
*
26958599 AGATAAGATCTGTGATTTTAATCC
65 AGATAAGATCTGTCATTTTAATCC
* * * *
26958623 GCTCCACTGCAACTTTAGG-GAGATAGGA-TTG-TCGGCTTTAATCTGCTCCACTGCAACCTCAG
1 GCTCCACTGCAACTTCAGGAG-GATAAGACTTGCT-GAC-TTAATCTGCTCCACTGCAACTTCAG
* * *
26958685 GGAGATAAGATTTGTCATCTTTAGTCT
63 GGAGATAAGATCTGTCAT-TTTAATCC
* *
26958712 GC-CTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGG
1 GCTC-CACTGCAACTTCAGGAGGATAAGACTTGCTGACTTAATCTGCTCCACTGCAACTTCAGGG
26958776 AGATAAGA
65 AGATAAGA
26958784 CTAGATGCGA
Statistics
Matches: 555, Mismatches: 138, Indels: 146
0.66 0.16 0.17
Matches are distributed among these distances:
82 1 0.00
83 9 0.02
84 122 0.22
85 64 0.12
86 11 0.02
87 22 0.04
88 113 0.20
89 201 0.36
90 11 0.02
91 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (88 bp):
GCTCCACTGCAACTTCAGGAGGATAAGACTTGCTGACTTAATCTGCTCCACTGCAACTTCAGGGA
GATAAGATCTGTCATTTTAATCC
Found at i:26958932 original size:390 final size:389
Alignment explanation
Indices: 26958141--26958955 Score: 876
Period size: 390 Copynumber: 2.1 Consensus size: 389
26958131 GACTTGATTA
* * *
26958141 CTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGTAATCTGCTCTCTGCAACTTCA
1 CTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTAAATGCAATCTGCTCTCTGCAACTTCA
*
26958206 GAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCAGCTT
66 GAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCAGCTT
* *
26958271 TAACCTGCTTCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACT
131 TAACCTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACT
* * * **
26958336 TCAGGAGGATAAGACTTGATGCGATATGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTT
196 TCAGGAGGATAAGACTTGATACGATATGCTCACTGCAACTTCAGAGAGATAAGA-CCAAGGATGC
* * * *
26958401 AATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAACCTGCTCCACTACAACTTT
260 AATCCACTCCACTGCAACTTCAGGAAGATAAGATCATAGGCTTTAACCTGCTCCACTACAACTTC
* * * * * ** * * * *
26958466 AGAGAGATAAGATTTGCCATCTTCAGTCCGCCTCACTGCAATTTCAGGAGGATAAGACTTGCTTG
325 AGAGAGACAAGACTTGCCAGCTTAAATCCGCCTCACCACAATTTCAGAAAGATAAGACTTCCGTG
* * * * *
26958531 CTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAAATGCGATCTGCTCTCTGTAACTTCA
1 CTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTAAATGCAATCTGCTCTCTGCAACTTCA
** * * * * *
26958596 GAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGTCGGCTT
66 GAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCAGCTT
* * * *
26958661 TAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGTCATCTTTAGTCTGCCTCACTGCAACT
131 TAACCTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACT
* * * * *
26958726 TCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTA-GA
196 TCAGGAGGATAAGACTTG-ATAC-GA-TATGCT-CACTGCAACTTCAGAGAGATAAGACCAAGGA
* ** * * * *
26958789 TGCGATCTGCT-CTCTGTAACTTCA-GAGAGATAAGATCCA-AGGTTTTAATCCT-CTTCACTAC
257 TGCAATCCACTCCACTGCAACTTCAGGA-AGATAAGAT-CATAGGCTTTAA-CCTGCTCCACTAC
* * ** * * * *
26958850 AACTTCAGGGAGACAAGGCTTGGTAGCTTAAATCTGCTTC-CCACTATCTTC-GAAAGATATGAT
319 AACTTCAGAGAGACAAGACTTGCCAGCTTAAATCCGCCTCACCACAAT-TTCAGAAAGATAAGA-
*
26958913 TTTCCGT-
382 CTTCCGTG
**
26958920 CTTCAATCTGCTCCACTACTGCTT-AGGGAGATAAGA
1 CTT-AATCTGCTCCACTACAACTTCAGGGAGATAAGA
26958956 TCTACNNNNN
Statistics
Matches: 349, Mismatches: 66, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
389 29 0.08
390 277 0.79
391 13 0.04
392 3 0.01
393 5 0.01
394 22 0.06
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (389 bp):
CTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTAAATGCAATCTGCTCTCTGCAACTTCA
GAGAGATAAGATCTAAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCAGCTT
TAACCTGCTCCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACT
TCAGGAGGATAAGACTTGATACGATATGCTCACTGCAACTTCAGAGAGATAAGACCAAGGATGCA
ATCCACTCCACTGCAACTTCAGGAAGATAAGATCATAGGCTTTAACCTGCTCCACTACAACTTCA
GAGAGACAAGACTTGCCAGCTTAAATCCGCCTCACCACAATTTCAGAAAGATAAGACTTCCGTG
Found at i:26959379 original size:132 final size:130
Alignment explanation
Indices: 26959112--26959394 Score: 422
Period size: 132 Copynumber: 2.2 Consensus size: 130
26959102 NNNNNCGCTG
* * *
26959112 CTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTGGAAAGATAAGATTTG
1 CTGCTCAGGGAGACAAGGCTTGGGGGCTTAAATCTACTTCCCACTATCTGGAAAGATAAGATTTG
* * * * ** *
26959177 TCGTCTTCAATCTTCTCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCTGCTG
66 CCGTCCTCAATCTACTCACTACTGCTTAGGGAGATAAGATCTACAATCCTCAACCTACTCCACTA
26959242 CTGCTCAGGGAGACAAGGCTTGGGGGCTTAAATCTACTTCCCACTATCTTGGAAAGATAAGATTT
1 CTGCTCAGGGAGACAAGGCTTGGGGGCTTAAATCTACTTCCCACTATC-TGGAAAGATAAGATTT
* *
26959307 GCCGTCCTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACGATCCTCAACCTACTCCAC
65 GCCGTCCTCAATCTACT-CACTACTGCTTAGGGAGATAAGATCTACAATCCTCAACCTACTCCAC
26959372 TA
129 TA
* *
26959374 TTGCTCAAGGAGACAAGGCTT
1 CTGCTCAGGGAGACAAGGCTT
26959395 AGTGTTTCAC
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
130 45 0.33
131 29 0.21
132 63 0.46
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (130 bp):
CTGCTCAGGGAGACAAGGCTTGGGGGCTTAAATCTACTTCCCACTATCTGGAAAGATAAGATTTG
CCGTCCTCAATCTACTCACTACTGCTTAGGGAGATAAGATCTACAATCCTCAACCTACTCCACTA
Found at i:26965637 original size:19 final size:19
Alignment explanation
Indices: 26965613--26965649 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
26965603 TATATATAAA
*
26965613 AATATTAAATAATAATTAC
1 AATATTAAAAAATAATTAC
26965632 AATATTAAAAAATAATTA
1 AATATTAAAAAATAATTA
26965650 TACGTACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
AATATTAAAAAATAATTAC
Found at i:26966173 original size:19 final size:21
Alignment explanation
Indices: 26966135--26966173 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
26966125 CCTTTTTTAA
*
26966135 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
26966156 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
26966174 AACAGTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:26966385 original size:23 final size:22
Alignment explanation
Indices: 26966342--26966399 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
26966332 AAAGGGTATC
* *
26966342 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
26966363 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
26966386 TACATATCATATCT
1 TACAAATCATATCT
26966400 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:26966393 original size:17 final size:17
Alignment explanation
Indices: 26966371--26966423 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
26966361 ATTACAAAAT
26966371 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
26966388 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
* *
26966407 CATATCCTCGAAGATTA
1 CATATCTTCTAAGATTA
26966424 TGTTTCCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:26966402 original size:19 final size:20
Alignment explanation
Indices: 26966355--26966412 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
26966345 AAATTAAATC
*
26966355 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA--T
26966378 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
*
26966397 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
26966413 CTCGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
22 7 0.21
23 11 0.33
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:26977597 original size:138 final size:138
Alignment explanation
Indices: 26977447--26978007 Score: 890
Period size: 138 Copynumber: 4.1 Consensus size: 138
26977437 AGAGAACACA
* * **
26977447 AATATACTTAATATATGAATTTAATTCATACAAAATATTAATTGTATATATTTTATTGAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
*
26977512 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
66 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
*
26977577 TTGGAAAT
131 TTGGAAAG
* * * *
26977585 CATATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATCTATTTTACCCAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
* * * *
26977650 TAATATAAATAGTTATATTAATTAATTTCGGTCAAAATAAAAAAGACATGAAAATGAATATTATT
66 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
26977715 TTGGAAAG
131 TTGGAAAG
26977723 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
* *
26977788 TAATATACAA-AATTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAATTAATATTCT
66 TAATATA-AACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCT
*
26977852 TTTAGAAAG
130 TTTGGAAAG
* *
26977861 AATATAATTAATATATGAAATTGATTCATACAAAATATTAATTGTATATGTTTTACCGAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
* * **
26977926 TAATATAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATAAAAAAAAATATTCTT
66 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
26977991 TTGGAAAG
131 TTGGAAAG
*
26977999 GATATAATT
1 AATATAATT
26978008 CATTTTTCTA
Statistics
Matches: 387, Mismatches: 34, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
137 2 0.01
138 383 0.99
139 2 0.01
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (138 bp):
AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
TTGGAAAG
Found at i:26978115 original size:76 final size:76
Alignment explanation
Indices: 26978025--26978194 Score: 234
Period size: 76 Copynumber: 2.2 Consensus size: 76
26978015 CTAACTTTTC
* * *
26978025 ATTAATAAGAGAATAATCCTATATTC-TTTTACAAATAATATAATTATTTTTTTCTAACTTTCTA
1 ATTAATAAGGGAATAATCCTATATTCTTTTTACAAATAATATAATT-CTTTTTTCTAACTTTCCA
*
26978089 ATTGTCTTCTCT
65 ATTGCCTTCTCT
* ** * *
26978101 ATTAAGAAGGGAATAATCCTATATTCTTTTTGGAAATAATATAATTCTTTTTTCTAATTTTCCAT
1 ATTAATAAGGGAATAATCCTATATTCTTTTTACAAATAATATAATTCTTTTTTCTAACTTTCCAA
26978166 TTGCCTTCTCT
66 TTGCCTTCTCT
*
26978177 ATTAATAAGGAAATAATC
1 ATTAATAAGGGAATAATC
26978195 TTGGTTTTCC
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
76 65 0.79
77 17 0.21
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (76 bp):
ATTAATAAGGGAATAATCCTATATTCTTTTTACAAATAATATAATTCTTTTTTCTAACTTTCCAA
TTGCCTTCTCT
Found at i:26978544 original size:150 final size:150
Alignment explanation
Indices: 26978330--26978632 Score: 570
Period size: 150 Copynumber: 2.0 Consensus size: 150
26978320 CAAGAGAAAG
*
26978330 TGGCTGTTCGTTGGACTATGTAGAGGTCGAGATGTTTTCGTTGCAGCTTGGAATGGACATTGAAT
1 TGGCTGTTCGTTGGACTATGTAGAGGCCGAGATGTTTTCGTTGCAGCTTGGAATGGACATTGAAT
*
26978395 TAGCAACATCCTTTCAACATTTCTAGTAAATAAGGTACATTTTCAACCCTATTTGAACCTAATTC
66 TAGCAACATCCTTTCAACATTTCCAGTAAATAAGGTACATTTTCAACCCTATTTGAACCTAATTC
26978460 ATTCCTCGTACATAGATCCT
131 ATTCCTCGTACATAGATCCT
26978480 TGGCTGTTCGTTGGACTATGTAGAGGCCGAGATGTTTTCGTTGCAGCTTGGAATGGACATTGAAT
1 TGGCTGTTCGTTGGACTATGTAGAGGCCGAGATGTTTTCGTTGCAGCTTGGAATGGACATTGAAT
26978545 TAGCAACATCCTTTCAACATTTCCAGTAAATAAGGTACATTTTCAACCCTATTTGAACCTAATTC
66 TAGCAACATCCTTTCAACATTTCCAGTAAATAAGGTACATTTTCAACCCTATTTGAACCTAATTC
* *
26978610 GTTCCTCGTACATAGATTCT
131 ATTCCTCGTACATAGATCCT
26978630 TGG
1 TGG
26978633 TTGTCGATCG
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
150 149 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (150 bp):
TGGCTGTTCGTTGGACTATGTAGAGGCCGAGATGTTTTCGTTGCAGCTTGGAATGGACATTGAAT
TAGCAACATCCTTTCAACATTTCCAGTAAATAAGGTACATTTTCAACCCTATTTGAACCTAATTC
ATTCCTCGTACATAGATCCT
Found at i:26984930 original size:140 final size:138
Alignment explanation
Indices: 26984669--26985094 Score: 631
Period size: 140 Copynumber: 3.1 Consensus size: 138
26984659 GAGAACATAG
*
26984669 ATATATTTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
* * * * *
26984734 AATATAAACAATTGTATTAACTAATTTCGTTCAAAATATAAAAT-ACATGAAAATTAATATTATT
66 AATATAAATAATTATATTAATTAATTTCGATCAAAATAT-AAATGACATGAAAATTAATATTCTT
26984798 TTGGAAAGA
130 TTGGAAAGA
* *
26984807 GTATAATTAATATATATGAATCTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTA
1 ATATAATT-A-ATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTA
* * * *
26984872 TTAAT-TAAAATAATTATTTTAATTAATTTCGGTCAAAATATAATTGACATGGAAATTAATATTC
64 TTAATAT-AAATAATTATATTAATTAATTTCGATCAAAATATAAATGACATGAAAATTAATATTC
*
26984936 TTTTGGAATGA
128 TTTTGGAAAGA
* **
26984947 ATATAATTAATATATGAATTTGATTCATAAAAAAATTATTAATTGTATATATTTTACTGAATTTA
1 ATATAATTAATATATGAATTTGATTCAT-ACAAAA-TATTAATTGTATATATTTTACCAAATTTA
*
26985012 TTAATATAAATAATTATATTAATTAATTTCGATCAAAATATAAAAGACATGAAAATTAATATTCT
64 TTAATATAAATAATTATATTAATTAATTTCGATCAAAATATAAATGACATGAAAATTAATATTCT
26985077 TTTGGAAAGA
129 TTTGGAAAGA
26985087 ATATAATT
1 ATATAATT
26985095 CCTTTTTCTA
Statistics
Matches: 258, Mismatches: 23, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
138 24 0.09
139 11 0.04
140 222 0.86
141 1 0.00
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
AATATAAATAATTATATTAATTAATTTCGATCAAAATATAAATGACATGAAAATTAATATTCTTT
TGGAAAGA
Found at i:26988285 original size:15 final size:15
Alignment explanation
Indices: 26988256--26988317 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
26988246 ATGTTTCAGT
* *
26988256 AAGATTGAAAGAGAA
1 AAGAGTGAAAAAGAA
*
26988271 ATGAGTGAAAAAGAAA
1 AAGAGTGAAAAAG-AA
26988287 AAGAGACTGAAAAAGAA
1 AAGAG--TGAAAAAGAA
* *
26988304 ACGGGTGAAAAAGA
1 AAGAGTGAAAAAGA
26988318 CGGAAGTGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
15 19 0.50
16 6 0.16
17 5 0.13
18 8 0.21
ACGTcount: A:0.60, C:0.03, G:0.27, T:0.10
Consensus pattern (15 bp):
AAGAGTGAAAAAGAA
Found at i:26989037 original size:45 final size:45
Alignment explanation
Indices: 26988988--26989131 Score: 168
Period size: 45 Copynumber: 3.2 Consensus size: 45
26988978 TCAGTCACGA
*
26988988 TCTTATTTATTTCTGACATCA-TGTCATAGTGTCTTTCAACTATAG
1 TCTTATTCATTTCTGACAT-AGTGTCATAGTGTCTTTCAACTATAG
** *
26989033 TCTTATTCATTTCTGGTATAGTGTCATAGTGTCTTTCAACTATGG
1 TCTTATTCATTTCTGACATAGTGTCATAGTGTCTTTCAACTATAG
* * * *
26989078 TCTTATTCATTTC-CAGTATAGT-TCCATAGTGTCTTTTAACTATGG
1 TCTTATTCATTTCTGA-CATAGTGT-CATAGTGTCTTTCAACTATAG
26989123 TCTTATTCA
1 TCTTATTCA
26989132 ATTTTCAAGC
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
44 2 0.02
45 87 0.98
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.47
Consensus pattern (45 bp):
TCTTATTCATTTCTGACATAGTGTCATAGTGTCTTTCAACTATAG
Found at i:26989045 original size:21 final size:21
Alignment explanation
Indices: 26989021--26989099 Score: 52
Period size: 21 Copynumber: 3.6 Consensus size: 21
26989011 TCATAGTGTC
26989021 TTTCAACTATAGTCTTATTCA
1 TTTCAACTATAGTCTTATTCA
*** *
26989042 TTTCTGGTATAGTGTCATAGTGTC-
1 TTTCAACTATA--GTCTTA-T-TCA
*
26989066 TTTCAACTATGGTCTTATTCA
1 TTTCAACTATAGTCTTATTCA
* *
26989087 TTTCCAGTATAGT
1 TTTCAACTATAGT
26989100 TCCATAGTGT
Statistics
Matches: 41, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
20 2 0.05
21 19 0.46
22 5 0.12
23 5 0.12
24 8 0.20
25 2 0.05
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.47
Consensus pattern (21 bp):
TTTCAACTATAGTCTTATTCA
Found at i:26992294 original size:75 final size:75
Alignment explanation
Indices: 26992160--26992340 Score: 281
Period size: 75 Copynumber: 2.4 Consensus size: 75
26992150 CACTTATTAA
* * * *
26992160 AAAAGAAAATAAGGATTATTCCCTAATTAATAGGGAAGGCAAATGAAAAGTTAGAAAAATGAATT
1 AAAAGAATAT-AGGATTATTCCCTTATTAATAGAGAAAGCAAATGAAAAGTTAGAAAAATGAATT
*
26992225 ATATTCTTTCC
65 ATATACTTTCC
* * *
26992236 AAAAGAATATAGGATCATTCTCTTATTAATAGAGAAAGCAAATGAAAAGTTAGAAAAATGAATTG
1 AAAAGAATATAGGATTATTCCCTTATTAATAGAGAAAGCAAATGAAAAGTTAGAAAAATGAATTA
26992301 TATACTTTCC
66 TATACTTTCC
26992311 AAAAGAATATAGGATTATTCCCTTATTAAT
1 AAAAGAATATAGGATTATTCCCTTATTAAT
26992341 GGAACGTTAG
Statistics
Matches: 95, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
75 86 0.91
76 9 0.09
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.30
Consensus pattern (75 bp):
AAAAGAATATAGGATTATTCCCTTATTAATAGAGAAAGCAAATGAAAAGTTAGAAAAATGAATTA
TATACTTTCC
Found at i:26992606 original size:138 final size:138
Alignment explanation
Indices: 26992358--26993055 Score: 1198
Period size: 138 Copynumber: 5.1 Consensus size: 138
26992348 TAGAAAAATG
* *
26992358 AATTATATTTTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAAATTAATTGA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAAATTAATTAA
* *
26992423 TATAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTCGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
26992488 CAAATATT
131 CATATATT
* *
26992496 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTATTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAAATTAATTAA
*
26992561 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
26992626 CATATATT
131 CATATATT
* *
26992634 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTATTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAAATTAATTAA
26992699 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
26992764 CATATATT
131 CATATATT
*
26992772 AATTATATTCTTTCCAAAAGAATATTAATTTCCATATATTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAAATTAATTAA
* * * * * **
26992837 TATAACTATTTATATTAAGAAATTCGATAAAATATATACAATTAATACTATGTATGAATCATCTT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
26992902 TATATATT
131 CATATATT
* *
26992910 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTGATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAAATTAATTAA
*
26992975 TATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
26993040 CATATATT
131 CATATATT
26993048 AATTATAT
1 AATTATAT
26993056 CTATGTTCTC
Statistics
Matches: 528, Mismatches: 32, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
138 528 1.00
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTATTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:26992609 original size:67 final size:67
Alignment explanation
Indices: 26992538--26992750 Score: 179
Period size: 67 Copynumber: 3.1 Consensus size: 67
26992528 CATGTATTTT
26992538 ATATTTTGATCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAAT
1 ATATTTTGATCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAAT
26992603 TA
66 TA
* * * * *
26992605 ATATTTTGTAT-G-AATCAAATTCATATATTAATTATATTCT-TTCCAAAAGAATAT---T-AAT
1 ATATTTTG-ATCGAAAT-TAATT-A-ATA-TAATTGT-TTATATT--AATA-AAT-TCGGTAAAA
* ** * *
26992663 TTTCATGTATTTT
56 TAT-ATACAATTA
*
26992676 ATATTTTGATCGAAATTAATTAATATAACTGTTTATATTAATAAATTCGGTAAAATATATACAAT
1 ATATTTTGATCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAAT
26992741 TA
66 TA
26992743 ATATTTTG
1 ATATTTTG
26992751 TATGAATCAA
Statistics
Matches: 107, Mismatches: 21, Indels: 36
0.65 0.13 0.22
Matches are distributed among these distances:
64 1 0.01
65 3 0.03
66 6 0.06
67 30 0.28
68 14 0.13
69 6 0.06
70 15 0.14
71 22 0.21
72 6 0.06
73 3 0.03
74 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (67 bp):
ATATTTTGATCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAAT
TA
Found at i:26995486 original size:22 final size:21
Alignment explanation
Indices: 26995441--26995479 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
26995431 TTAAGGACTT
*
26995441 TTTAATTTAATATAGTTTTTA
1 TTTAAATTAATATAGTTTTTA
26995462 TTTAAATTAATA-AGTTTT
1 TTTAAATTAATATAGTTTT
26995480 CATATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTAAATTAATATAGTTTTTA
Found at i:27005017 original size:26 final size:26
Alignment explanation
Indices: 27004988--27005043 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
27004978 CCTGTAAGTG
*
27004988 TTCTAAAATTGATACATGCTATGATA
1 TTCTAAAACTGATACATGCTATGATA
* * *
27005014 TTCTTAAACTGATATATGTTATGATA
1 TTCTAAAACTGATACATGCTATGATA
27005040 TTCT
1 TTCT
27005044 GGAACTACTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (26 bp):
TTCTAAAACTGATACATGCTATGATA
Found at i:27014274 original size:22 final size:22
Alignment explanation
Indices: 27014249--27014293 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
27014239 ATTATGATGA
27014249 TTGATATG-ATGAGATTTATATT
1 TTGATATGTATGAGA-TTATATT
*
27014271 TTGATATGTATGTGATTATATT
1 TTGATATGTATGAGATTATATT
27014293 T
1 T
27014294 GTGTTGATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (22 bp):
TTGATATGTATGAGATTATATT
Found at i:27015458 original size:82 final size:82
Alignment explanation
Indices: 27015321--27015487 Score: 282
Period size: 82 Copynumber: 2.0 Consensus size: 82
27015311 AAGTTGTACT
27015321 AAAACTAAGCTTCGATCCCAAAGCTTCTTGCAAACTCTTCCAAAATCTCAAAGTAAATCAG-TAA
1 AAAACTAAGCTTCGATCCCAAAGCTTCTTGCAAACTCTTCCAAAATCTCAAAGTAAAT-AGCTAA
27015385 TCCTTATCTGAAATAATC
65 TCCTTATCTGAAATAATC
* * *
27015403 AAAACTAAGCTTCGATCCCAAAGCTTCTTGTAAACTCTTCCAAAATCTCAAAGTAAATTGCTGAT
1 AAAACTAAGCTTCGATCCCAAAGCTTCTTGCAAACTCTTCCAAAATCTCAAAGTAAATAGCTAAT
*
27015468 CCTTCTCTGAAATAATC
66 CCTTATCTGAAATAATC
27015485 AAA
1 AAA
27015488 CCTGGAACCC
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
81 1 0.01
82 79 0.99
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (82 bp):
AAAACTAAGCTTCGATCCCAAAGCTTCTTGCAAACTCTTCCAAAATCTCAAAGTAAATAGCTAAT
CCTTATCTGAAATAATC
Found at i:27016850 original size:50 final size:51
Alignment explanation
Indices: 27016744--27016984 Score: 272
Period size: 50 Copynumber: 4.7 Consensus size: 51
27016734 GGGAATGAGA
*
27016744 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C-CTGAG---ATGAGAGG
* *
27016800 TCCCATGTAAGACCATGTCAGGGACATGGCGTTGGCACCT-AGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGAGATGAGAGG
* * *
27016850 TCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCACC-GAGATGGGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGAGATGAGAGG
* * * * **
27016900 TCCCATGTAAGACCATGACTGGGACATGGCATGGGCA-TTGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGAGATGAGAGG
* * * *
27016950 TCCCATGTAAGACCATATCTGAGATATGACATTGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGG
27016985 TAGTACAGAA
Statistics
Matches: 162, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
50 123 0.76
53 2 0.01
54 1 0.01
55 1 0.01
56 35 0.22
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (51 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGAGATGAGAGG
Found at i:27017244 original size:4 final size:4
Alignment explanation
Indices: 27017235--27017273 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
27017225 ATGAGTTATT
* * *
27017235 TAAG TAAG TAAG TAAG TAAA CAAG TAAG TGAG TAAG TAA
1 TAAG TAAG TAAG TAAG TAAG TAAG TAAG TAAG TAAG TAA
27017274 AGAAGCGAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.51, C:0.03, G:0.23, T:0.23
Consensus pattern (4 bp):
TAAG
Found at i:27017261 original size:20 final size:20
Alignment explanation
Indices: 27017236--27017274 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
27017226 TGAGTTATTT
27017236 AAGTAAGTAAGTAAGTAAAC
1 AAGTAAGTAAGTAAGTAAAC
*
27017256 AAGTAAGTGAGTAAGTAAA
1 AAGTAAGTAAGTAAGTAAA
27017275 GAAGCGAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.03, G:0.23, T:0.21
Consensus pattern (20 bp):
AAGTAAGTAAGTAAGTAAAC
Found at i:27024449 original size:50 final size:50
Alignment explanation
Indices: 27024351--27024539 Score: 218
Period size: 50 Copynumber: 3.7 Consensus size: 50
27024341 ATGAGATCCA
* *
27024351 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGCTCCC
27024407 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGCTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGCTCCC
** * * * *
27024457 CCGTAAGACCATGTGTGGGACATAGCA-TGCGCACCGATATGAGAACTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTG-GCACCGAGATGAGAGCTCCC
* *
27024507 ATGTAAGACCATATCTGGGATATGGCATTGGCA
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA
27024540 GTACAGAAAA
Statistics
Matches: 117, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
49 2 0.02
50 76 0.65
51 2 0.02
53 3 0.03
55 1 0.01
56 33 0.28
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGCTCCC
Found at i:27039417 original size:50 final size:51
Alignment explanation
Indices: 27039290--27039420 Score: 165
Period size: 51 Copynumber: 2.6 Consensus size: 51
27039280 AAAGGTCGCA
* * * * *
27039290 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCAATCTCG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGCTTCAATCACG
* **
27039341 TGTGTAGTACTATGTGCATGCTACTACGTGAACCAGAAAG-TTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGCTTCAATCACG
* *
27039391 TGTGTAGTACTATGTGAAGGCCACTACGTG
1 TGTGTAGTACTATGTGCAGGCTACTACGTG
27039421 TATCGAATGA
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 34 0.49
51 35 0.51
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGCTTCAATCACG
Found at i:27047475 original size:26 final size:24
Alignment explanation
Indices: 27047421--27047471 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
27047411 CATTCACATG
27047421 TATGCCCACTAAAATTTTTGTATC
1 TATGCCCACTAAAATTTTTGTATC
*
27047445 TATGCCCACTAAAATTTTTTTATC
1 TATGCCCACTAAAATTTTTGTATC
27047469 TAT
1 TAT
27047472 ATGCTACTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.45
Consensus pattern (24 bp):
TATGCCCACTAAAATTTTTGTATC
Found at i:27052817 original size:39 final size:39
Alignment explanation
Indices: 27052774--27052925 Score: 205
Period size: 39 Copynumber: 3.9 Consensus size: 39
27052764 AACATGTCTT
* * *
27052774 TGAGTATTACGACATATGCTTGAATGTTATGTGATCGTA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGATCATA
*
27052813 TGAGTATTGCGATATATGCTTGAATGTTACGTGATCATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGATCATA
* * * * *
27052852 TGAGTATTGCAATATGTGCTTGAACGTTATGTAATTATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGATCATA
* *
27052891 TGAGTATTGTGATATATGCTTAAATGTTATGTGAT
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGAT
27052926 TTAATGTGTA
Statistics
Matches: 97, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 97 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (39 bp):
TGAGTATTGCGATATATGCTTGAATGTTATGTGATCATA
Found at i:27052953 original size:39 final size:40
Alignment explanation
Indices: 27052774--27052950 Score: 191
Period size: 39 Copynumber: 4.5 Consensus size: 40
27052764 AACATGTCTT
* * **
27052774 TGAGTATTACGACATATGCTTGAATGTTATGTGA-TCGTA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGATTTATA
* *
27052813 TGAGTATTGCGATATATGCTTGAATGTTACGTGA-TCATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGATTTATA
* * * *
27052852 TGAGTATTGCAATATGTGCTTGAACGTTATGT-AATTATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGATTTATA
* *
27052891 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTTA-A
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGATTTATA
* * *
27052930 TGTGTAATGTGATATATGCTT
1 TGAGTATTGCGATATATGCTT
27052951 AAAAGTGAAT
Statistics
Matches: 119, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
38 1 0.01
39 114 0.96
40 4 0.03
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (40 bp):
TGAGTATTGCGATATATGCTTGAATGTTATGTGATTTATA
Found at i:27057991 original size:31 final size:31
Alignment explanation
Indices: 27057955--27058016 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
27057945 TAGAGTTCTA
* *
27057955 TTAGTTAAATGTATCAATTAACTATGAAACT
1 TTAGTTAAAGGTATAAATTAACTATGAAACT
27057986 TTAGTTAAAGGTATAAATTAACTATGAAACT
1 TTAGTTAAAGGTATAAATTAACTATGAAACT
27058017 CTAAATTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (31 bp):
TTAGTTAAAGGTATAAATTAACTATGAAACT
Found at i:27069006 original size:11 final size:11
Alignment explanation
Indices: 27068986--27069019 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
27068976 CTCTCATGCT
27068986 AGGAAACTTCA
1 AGGAAACTTCA
*
27068997 AGGAACCTTCA
1 AGGAAACTTCA
*
27069008 AGGAAGCTTCA
1 AGGAAACTTCA
27069019 A
1 A
27069020 AGGATGTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.18
Consensus pattern (11 bp):
AGGAAACTTCA
Found at i:27071157 original size:28 final size:28
Alignment explanation
Indices: 27071126--27071203 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
27071116 GTATAGTGTG
27071126 GGCCTTAGCCCAATACAGTAACAGTGCA
1 GGCCTTAGCCCAATACAGTAACAGTGCA
* ** *
27071154 GGCCTTTGCTAAATACAGTAACAGTGCG
1 GGCCTTAGCCCAATACAGTAACAGTGCA
27071182 GGCCTTAGCCCAATACAGTAAC
1 GGCCTTAGCCCAATACAGTAAC
27071204 CAGTACAGTG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.21
Consensus pattern (28 bp):
GGCCTTAGCCCAATACAGTAACAGTGCA
Found at i:27071575 original size:27 final size:27
Alignment explanation
Indices: 27071545--27071831 Score: 214
Period size: 27 Copynumber: 10.7 Consensus size: 27
27071535 TCATCTCTTA
**
27071545 GGGGTATAACAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
27071572 GGGGTATTTCATTCATTTTACCTTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
27071599 GGGGTATTTCACTCATTTTACCGT-TCG
1 GGGGTATTTCAGTCATTTTACCCTAT-G
27071626 GGGGTATTTCAGTCATTTTACCCT-TCG
1 GGGGTATTTCAGTCATTTTACCCTAT-G
* *
27071653 AGGGTATTTC-GATCATTTTA-CCTTTCG
1 GGGGTATTTCAG-TCATTTTACCCTAT-G
* * * *
27071680 AGGGTATTTCAGTAATTATACCCTTTG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
27071707 AGGGTATTTCAGTCATTTTATCCT-TCG
1 GGGGTATTTCAGTCATTTTACCCTAT-G
* ** *
27071734 AGGGTATTTTGGTTATTTTACCCT-TCG
1 GGGGTATTTCAGTCATTTTACCCTAT-G
* *
27071761 AGGGTATTTC-GATCATTTTACCCT-TC
1 GGGGTATTTCAG-TCATTTTACCCTATG
* * * * *
27071787 TGGATATTTCGGTCTTTTTACCCT-TCA
1 GGGGTATTTCAGTCATTTTACCCTAT-G
27071814 GGGGTATTTCAGTCATTT
1 GGGGTATTTCAGTCATTT
27071832 GCCAACGAAT
Statistics
Matches: 222, Mismatches: 29, Indels: 18
0.83 0.11 0.07
Matches are distributed among these distances:
26 27 0.12
27 189 0.85
28 6 0.03
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.43
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:27071615 original size:54 final size:53
Alignment explanation
Indices: 27071557--27071831 Score: 279
Period size: 54 Copynumber: 5.1 Consensus size: 53
27071547 GGTATAACAG
* *
27071557 TCATTTTACCCTAT-GGGGGTATTTCATTCATTTTA-CCTTATGGGGGTATTTCA
1 TCATTTTACCCT-TCGGGGGTATTTCAGTCATTTTACCCTT-TGAGGGTATTTCA
* *
27071610 CTCATTTTACCGTTCGGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGA
1 -TCATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTTTGAGGGTATTTC-A
* * * *
27071665 TCATTTTACCTTTCGAGGGTATTTCAGTAATTATACCCTTTGAGGGTATTTCA
1 TCATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTTTGAGGGTATTTCA
* * ** * *
27071718 GTCATTTTATCCTTCGAGGGTATTTTGGTTATTTTACCCTTCGAGGGTATTTCGA
1 -TCATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTTTGAGGGTATTTC-A
* * * * *
27071773 TCATTTTACCCTTC-TGGATATTTCGGTCTTTTTACCC-TTCAGGGGTATTTCA
1 TCATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTTTGA-GGGTATTTCA
27071825 GTCATTT
1 -TCATTT
27071832 GCCAACGAAT
Statistics
Matches: 190, Mismatches: 24, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
52 3 0.02
53 35 0.18
54 146 0.77
55 6 0.03
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (53 bp):
TCATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTTTGAGGGTATTTCA
Found at i:27071669 original size:81 final size:79
Alignment explanation
Indices: 27071545--27071831 Score: 294
Period size: 81 Copynumber: 3.6 Consensus size: 79
27071535 TCATCTCTTA
** * * *
27071545 GGGGTATAACAGTCATTTTACCCTAT-GGGGGTATTTCATTCATTTTACCTTATGGGGGTATTTC
1 GGGGTATTTCAGTCATTTTACCCT-TCGAGGGTATTTCAGTCATTTTACCTT-TGAGGGTATTTC
*
27071609 ACTCATTTTACCGTTCG
64 A-TCATTTTACCCTTCG
27071626 GGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTC-GATCATTTTACCTTTCGAGGGTATTTC
1 GGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAG-TCATTTTACCTTT-GAGGGTATTTC
* * *
27071690 AGTAATTATACCCTTTG
64 A-TCATTTTACCCTTCG
* * ** * *
27071707 AGGGTATTTCAGTCATTTTATCCTTCGAGGGTATTTTGGTTATTTTACCCTTCGAGGGTATTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTA-CCTTTGAGGGTATTTC-
27071772 ATCATTTTACCCTTC-
64 ATCATTTTACCCTTCG
* * * *
27071787 TGGATATTTCGGTCTTTTTACCCTTC-AGGGGTATTTCAGTCATTT
1 GGGGTATTTCAGTCATTTTACCCTTCGA-GGGTATTTCAGTCATTT
27071832 GCCAACGAAT
Statistics
Matches: 173, Mismatches: 26, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
79 1 0.01
80 37 0.21
81 129 0.75
82 6 0.03
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.43
Consensus pattern (79 bp):
GGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCTTTGAGGGTATTTCAT
CATTTTACCCTTCG
Found at i:27078796 original size:14 final size:14
Alignment explanation
Indices: 27078777--27078815 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
27078767 TGATTGCCAG
27078777 TAAAATGTTTTCCA
1 TAAAATGTTTTCCA
* *
27078791 TAAAATGATTTCTA
1 TAAAATGTTTTCCA
*
27078805 GAAAATGTTTT
1 TAAAATGTTTT
27078816 ACTTTTTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (14 bp):
TAAAATGTTTTCCA
Found at i:27080162 original size:35 final size:36
Alignment explanation
Indices: 27080115--27080191 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 36
27080105 ATTATCATTT
*
27080115 TCAATAATTTCAATATCCAACAAGCTTAAAACATAA
1 TCAATAAATTCAATATCCAACAAGCTTAAAACATAA
*
27080151 T-AATAAATTCAATATCCAACAAGGTTAAAACATAA
1 TCAATAAATTCAATATCCAACAAGCTTAAAACATAA
27080186 TCAATA
1 TCAATA
27080192 TCTAACAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 33 0.87
36 5 0.13
ACGTcount: A:0.52, C:0.17, G:0.04, T:0.27
Consensus pattern (36 bp):
TCAATAAATTCAATATCCAACAAGCTTAAAACATAA
Found at i:27082765 original size:10 final size:10
Alignment explanation
Indices: 27082750--27082775 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
27082740 TCATTAAGTG
27082750 CTAACAAATA
1 CTAACAAATA
27082760 CTAACAAATA
1 CTAACAAATA
27082770 CTAACA
1 CTAACA
27082776 GATCAGTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (10 bp):
CTAACAAATA
Found at i:27085395 original size:27 final size:28
Alignment explanation
Indices: 27085364--27085428 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
27085354 AATTTAAGTA
* *
27085364 TTAATATGTTTTAA-TTAGTACATGTGT
1 TTAATATGTTTTAAGCTAGTACATATGT
* * *
27085391 TTAATGTGTTTTAAGCTATTACATATTT
1 TTAATATGTTTTAAGCTAGTACATATGT
27085419 TTAATATGTT
1 TTAATATGTT
27085429 CTAGCTGGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
27 13 0.42
28 18 0.58
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (28 bp):
TTAATATGTTTTAAGCTAGTACATATGT
Found at i:27087626 original size:81 final size:80
Alignment explanation
Indices: 27087513--27087762 Score: 297
Period size: 81 Copynumber: 3.1 Consensus size: 80
27087503 GGGTATAACA
* * *
27087513 ATCATTTTACCCTATGGGGGTATTTC-AGTCATTTTACCCTTCGGGGGTATTTCAATCATTATAC
1 ATCATTTTACCCT-TGAGGGTATTTCGA-TCATTTTACCCTTCAGGGGTATTTCAATCATTTTAC
*
27087577 CCTTCGGGGGTATTTTG
64 CCTTCGAGGGTATTTTG
* * * *
27087594 ATCATGTTACCCTTCGAGGGTATTTCGATCATTTTATCCTTCAAGGGTATTTCGATCATTTTACC
1 ATCATTTTACCCTT-GAGGGTATTTCGATCATTTTACCCTTCAGGGGTATTTCAATCATTTTACC
* *
27087659 TTTCGTGGGTATTTTG
65 CTTCGAGGGTATTTTG
* * * * *
27087675 GTCATTTTACCCTTTGAGGGTATTTCGGTCCTTTTACCCTTCAGGGTTATTTCAGTCATTTTACC
1 ATCATTTTACCC-TTGAGGGTATTTCGATCATTTTACCCTTCAGGGGTATTTCAATCATTTTACC
*
27087740 CTTCAAGGGTATTTCTG
65 CTTCGAGGGTATTT-TG
27087757 -TCATTT
1 ATCATTT
27087763 GCCCACGGAT
Statistics
Matches: 144, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.01
81 138 0.96
82 5 0.03
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.44
Consensus pattern (80 bp):
ATCATTTTACCCTTGAGGGTATTTCGATCATTTTACCCTTCAGGGGTATTTCAATCATTTTACCC
TTCGAGGGTATTTTG
Found at i:27087759 original size:27 final size:27
Alignment explanation
Indices: 27087514--27087762 Score: 256
Period size: 27 Copynumber: 9.2 Consensus size: 27
27087504 GGTATAACAA
*
27087514 TCATTTTACCCTAT-GGGGGTATTTCAG
1 TCATTTTACCCT-TCGAGGGTATTTCAG
* *
27087541 TCATTTTACCCTTCGGGGGTATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTCAG
* * *
27087568 TCATTATACCCTTCGGGGGTATTT-TG
1 TCATTTTACCCTTCGAGGGTATTTCAG
*
27087594 ATCATGTTACCCTTCGAGGGTATTTC-G
1 -TCATTTTACCCTTCGAGGGTATTTCAG
* *
27087621 ATCATTTTATCCTTCAAGGGTATTTC-G
1 -TCATTTTACCCTTCGAGGGTATTTCAG
* * **
27087648 ATCATTTTACCTTTCGTGGGTATTTTGG
1 -TCATTTTACCCTTCGAGGGTATTTCAG
* *
27087676 TCATTTTACCCTTTGAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCAG
*
27087703 TCCTTTTACCCTTC-AGGGTTATTTCAG
1 TCATTTTACCCTTCGAGGG-TATTTCAG
* *
27087730 TCATTTTACCCTTCAAGGGTATTTCTG
1 TCATTTTACCCTTCGAGGGTATTTCAG
27087757 TCATTT
1 TCATTT
27087763 GCCCACGGAT
Statistics
Matches: 192, Mismatches: 24, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.03
27 182 0.95
28 5 0.03
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTCAG
Found at i:27088097 original size:8 final size:7
Alignment explanation
Indices: 27088086--27088123 Score: 53
Period size: 6 Copynumber: 5.6 Consensus size: 7
27088076 CGGCTAGAAA
27088086 AGAAGAAG
1 AGAAG-AG
27088094 AGAAGAG
1 AGAAGAG
27088101 A-AAGAG
1 AGAAGAG
27088107 AGAA-AG
1 AGAAGAG
27088113 AGAAGAG
1 AGAAGAG
27088120 AGAA
1 AGAA
27088124 TTTGGCAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 12 0.43
7 11 0.39
8 5 0.18
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (7 bp):
AGAAGAG
Found at i:27089442 original size:18 final size:18
Alignment explanation
Indices: 27089421--27089485 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
27089411 AAAAAAGATG
27089421 AAAGAAAAAGAAATTGAA
1 AAAGAAAAAGAAATTGAA
* *
27089439 AAAGAAAAAGAGAGTGAGA
1 AAAGAAAAAGAAATTGA-A
* *
27089458 TAAAGCAAAACAAGATTGAA
1 -AAAGAAAAAGAA-ATTGAA
27089478 AAAGAAAA
1 AAAGAAAA
27089486 CGAGTGCGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
18 15 0.41
19 8 0.22
20 10 0.27
21 4 0.11
ACGTcount: A:0.68, C:0.03, G:0.20, T:0.09
Consensus pattern (18 bp):
AAAGAAAAAGAAATTGAA
Found at i:27098672 original size:33 final size:33
Alignment explanation
Indices: 27098618--27098692 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 33
27098608 AGATTTAAAC
* *
27098618 AAATTAATTTCTAACATTTATTTAAGCTGAACTA
1 AAATTAA-TTCTAAAACTTATTTAAGCTGAACTA
*
27098652 AAATTAATTCTAAAACTTATTTGAGCTGAACTA
1 AAATTAATTCTAAAACTTATTTAAGCTGAACTA
*
27098685 AATTTAAT
1 AAATTAAT
27098693 AAACTAACTC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 30 0.81
34 7 0.19
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.40
Consensus pattern (33 bp):
AAATTAATTCTAAAACTTATTTAAGCTGAACTA
Found at i:27102640 original size:27 final size:25
Alignment explanation
Indices: 27102610--27102706 Score: 97
Period size: 27 Copynumber: 3.7 Consensus size: 25
27102600 ATTCGTGGGT
*
27102610 AAATGATCGAAATATCCTAGAAGGTTA
1 AAATGATCGAAATACCCT-GAAGG-TA
*
27102637 AAATGA-CAGAAATACCCCCGAAGGGTA
1 AAATGATC-GAAATA-CCCTGAA-GGTA
* *
27102664 AAATGACCGAAATACCCTGTATGGTA
1 AAATGATCGAAATACCCTG-AAGGTA
27102690 AAATGATCGAAATACCC
1 AAATGATCGAAATACCC
27102707 CTCATAGGGT
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
26 25 0.42
27 30 0.50
28 5 0.08
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.20
Consensus pattern (25 bp):
AAATGATCGAAATACCCTGAAGGTA
Found at i:27111898 original size:26 final size:26
Alignment explanation
Indices: 27111861--27111919 Score: 109
Period size: 26 Copynumber: 2.2 Consensus size: 26
27111851 GAAGAGAAAT
27111861 TAAATCAAGTTAATCAACCAATCGGCA
1 TAAA-CAAGTTAATCAACCAATCGGCA
27111888 TAAACAAGTTAATCAACCAATCGGCA
1 TAAACAAGTTAATCAACCAATCGGCA
27111914 TAAACA
1 TAAACA
27111920 GAAACAACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.47, C:0.22, G:0.10, T:0.20
Consensus pattern (26 bp):
TAAACAAGTTAATCAACCAATCGGCA
Found at i:27121046 original size:25 final size:25
Alignment explanation
Indices: 27121008--27121086 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
27120998 GGTTATCGAT
*
27121008 TTCAGCTCTGATGAGCTTACTGTTA
1 TTCAGCTCGGATGAGCTTACTGTTA
27121033 TTCAGCT-GGTATGAGCTTACTGTTA
1 TTCAGCTCGG-ATGAGCTTACTGTTA
* * **
27121058 TTAAGCTCGGAGGAGCTTACCATTA
1 TTCAGCTCGGATGAGCTTACTGTTA
27121083 TTCA
1 TTCA
27121087 TCTTGAAGGA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
24 1 0.02
25 43 0.93
26 2 0.04
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.37
Consensus pattern (25 bp):
TTCAGCTCGGATGAGCTTACTGTTA
Found at i:27131907 original size:26 final size:26
Alignment explanation
Indices: 27131864--27131920 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
27131854 TCTCATCCAT
* *
27131864 ATTTTACCCCTAACAAAATTTTGACA
1 ATTTTACCCCCAACAAAATTTTAACA
* * *
27131890 ATTTTACCCCCGATAAAATTTTAACG
1 ATTTTACCCCCAACAAAATTTTAACA
27131916 ATTTT
1 ATTTT
27131921 GCCCTTAGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (26 bp):
ATTTTACCCCCAACAAAATTTTAACA
Found at i:27132679 original size:20 final size:20
Alignment explanation
Indices: 27132654--27132709 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
27132644 TCTATGAGGT
27132654 TCAGCTCATTCGAGCTCAAG
1 TCAGCTCATTCGAGCTCAAG
** *
27132674 TCAGCTCACACGAGCTCAAT
1 TCAGCTCATTCGAGCTCAAG
27132694 TCAGCTCATT-GAGCTC
1 TCAGCTCATTCGAGCTC
27132710 GTTATTAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (20 bp):
TCAGCTCATTCGAGCTCAAG
Found at i:27134567 original size:33 final size:33
Alignment explanation
Indices: 27134521--27134588 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
27134511 TTTATTTTGT
*
27134521 TTTCATTTCTTGTTATTCCCGATCATCCATTCA
1 TTTCATTTATTGTTATTCCCGATCATCCATTCA
27134554 TTTCATTTATTGTTATTCCCGATCATCCATTCA
1 TTTCATTTATTGTTATTCCCGATCATCCATTCA
27134587 TT
1 TT
27134589 CTACCATTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.19, C:0.25, G:0.06, T:0.50
Consensus pattern (33 bp):
TTTCATTTATTGTTATTCCCGATCATCCATTCA
Found at i:27135428 original size:11 final size:12
Alignment explanation
Indices: 27135415--27135445 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
27135405 AGAAAACGAC
27135415 AAAGAAATTGCA
1 AAAGAAATTGCA
*
27135427 AAATAAATTGCA
1 AAAGAAATTGCA
27135439 AAAGAAA
1 AAAGAAA
27135446 AAAATCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (12 bp):
AAAGAAATTGCA
Found at i:27138754 original size:16 final size:16
Alignment explanation
Indices: 27138730--27138781 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
27138720 TTTCCATTTC
*
27138730 ATCTGTCCATCAAATT
1 ATCTATCCATCAAATT
27138746 ATCTATCCAT----TT
1 ATCTATCCATCAAATT
27138758 AATCTATCCATCAAATT
1 -ATCTATCCATCAAATT
27138775 ATCTATC
1 ATCTATC
27138782 ATATTTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
12 2 0.07
13 10 0.33
16 16 0.53
17 2 0.07
ACGTcount: A:0.33, C:0.25, G:0.02, T:0.40
Consensus pattern (16 bp):
ATCTATCCATCAAATT
Found at i:27138767 original size:29 final size:29
Alignment explanation
Indices: 27138722--27138781 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
27138712 AGTCTGAATT
* *
27138722 TCCATTTCATCTGTCCATCAAATTATCTA
1 TCCATTTAATCTATCCATCAAATTATCTA
27138751 TCCATTTAATCTATCCATCAAATTATCTA
1 TCCATTTAATCTATCCATCAAATTATCTA
27138780 TC
1 TC
27138782 ATATTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.30, C:0.27, G:0.02, T:0.42
Consensus pattern (29 bp):
TCCATTTAATCTATCCATCAAATTATCTA
Found at i:27143297 original size:45 final size:46
Alignment explanation
Indices: 27143248--27143373 Score: 157
Period size: 45 Copynumber: 2.8 Consensus size: 46
27143238 GTTATACTCC
* *
27143248 TAAAAATGAGTAAGACAATAGTTGAAAGATGCTATGA-CAACATGA
1 TAAAAATGAGTAAGACCATAGTTGAAAAATGCTATGAGCAACATGA
* * *
27143293 TAAAAATTAGTAAGACCATAGTTGAAAAATGCTAT-AGTATCATGA
1 TAAAAATGAGTAAGACCATAGTTGAAAAATGCTATGAGCAACATGA
* * * *
27143338 TAAAAGTGAGCAAGACCATAGCTAAAAAATGCTATG
1 TAAAAATGAGTAAGACCATAGTTGAAAAATGCTATG
27143374 TCATCAAGTG
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
44 1 0.01
45 68 0.99
ACGTcount: A:0.48, C:0.10, G:0.18, T:0.24
Consensus pattern (46 bp):
TAAAAATGAGTAAGACCATAGTTGAAAAATGCTATGAGCAACATGA
Found at i:27147519 original size:23 final size:23
Alignment explanation
Indices: 27147488--27147561 Score: 121
Period size: 23 Copynumber: 3.2 Consensus size: 23
27147478 ACCTACTTTC
* *
27147488 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
*
27147511 TTACAGTAGTAATTTTCGAGATA
1 TTACAGTAGTAATTTTCGGGATA
27147534 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
27147557 TTACA
1 TTACA
27147562 TTTCTCTCCC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:27149239 original size:100 final size:102
Alignment explanation
Indices: 27149047--27149284 Score: 248
Period size: 99 Copynumber: 2.3 Consensus size: 102
27149037 TGATAATAAC
* * * ** * * * *
27149047 ATGCAAAAGCCATGTTCCAGGCATGGTCTTACATGAGATGTTTCCTATACTGCCAATGTCATATC
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATACTGCCAACGCCATATC
** *
27149112 CCAGACATGGTCTTATGGGGGATCTCTC-ATC-C-TG
66 CCAGACATGGTCTTACAGGGGACCTCTCAATCTCATG
* * * * *
27149146 GTGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAT-ACTGCCAACGCCATAT
*
27149211 CCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATG
65 CCCAGACATGGTCTTACAGGGGACCTCTC--AATCTC-ATG
*
27149252 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACA
27149285 CTGGCTCACA
Statistics
Matches: 112, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
99 38 0.34
100 37 0.33
103 3 0.03
104 1 0.01
106 33 0.29
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (102 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATACTGCCAACGCCATATC
CCAGACATGGTCTTACAGGGGACCTCTCAATCTCATG
Found at i:27149258 original size:56 final size:50
Alignment explanation
Indices: 27149052--27149284 Score: 218
Period size: 50 Copynumber: 4.6 Consensus size: 50
27149042 ATAACATGCA
* * * ** * * * *
27149052 AAAGCCATGTTCCAGGCATGGTCTTACATGAGATGTTTCCTAT-ACTGCC
1 AAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCC
* * * *** * *
27149101 AATGTCATATCCCAGACATGGTCTTATGGGGGATCTCTCATC-CTGGTGCC
1 AAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-AGTGCC
27149151 AAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCC
1 AAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCC
*
27149201 AACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCC
1 AAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC-A-G-TGCC
*
27149257 AATGCCATGTCCCAGACATGGTCTTACA
1 AAAGCCATGTCCCAGACATGGTCTTACA
27149285 CTGGCTCACA
Statistics
Matches: 150, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
49 29 0.19
50 82 0.55
51 1 0.01
53 5 0.03
54 1 0.01
55 1 0.01
56 31 0.21
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (50 bp):
AAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCC
Found at i:27156536 original size:23 final size:23
Alignment explanation
Indices: 27156510--27156555 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
27156500 TTTCTTACTG
*
27156510 TAGTAATTTTCGGGGTATTACAA
1 TAGTAATTTTCGGGATATTACAA
27156533 TAGTAATTTTCGGGATATTACAA
1 TAGTAATTTTCGGGATATTACAA
27156556 GTTGCCCCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (23 bp):
TAGTAATTTTCGGGATATTACAA
Found at i:27162484 original size:20 final size:21
Alignment explanation
Indices: 27162445--27162489 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
27162435 AAATCGGTAG
*
27162445 AATTTTTATTCTAGAAAATAA
1 AATTTATATTCTAGAAAATAA
*
27162466 AATTTATATT-TAGAGAATAA
1 AATTTATATTCTAGAAAATAA
27162486 AATT
1 AATT
27162490 CTCACTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (21 bp):
AATTTATATTCTAGAAAATAA
Found at i:27164981 original size:29 final size:29
Alignment explanation
Indices: 27164949--27165008 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
27164939 CTAATCAAAA
*
27164949 TTAATTAATCAAAAATAACCTAATGGAAT
1 TTAATTAACCAAAAATAACCTAATGGAAT
* * * *
27164978 TTAATTAACCTAAGATATCCTAATTGAAT
1 TTAATTAACCAAAAATAACCTAATGGAAT
27165007 TT
1 TT
27165009 CCTATTCCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.37
Consensus pattern (29 bp):
TTAATTAACCAAAAATAACCTAATGGAAT
Found at i:27179627 original size:22 final size:24
Alignment explanation
Indices: 27179599--27179645 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
27179589 TGTGCAGTTT
*
27179599 ATATTTAATAA-AATATTAT-TTA
1 ATATTTAATAATAATAATATATTA
27179621 ATATTTAATAATAATAATATATTA
1 ATATTTAATAATAATAATATATTA
27179645 A
1 A
27179646 AATGTCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 7 0.32
24 4 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
ATATTTAATAATAATAATATATTA
Found at i:27180145 original size:86 final size:86
Alignment explanation
Indices: 27180000--27180171 Score: 308
Period size: 86 Copynumber: 2.0 Consensus size: 86
27179990 CAGGCCGAGC
* * *
27180000 TTGTCGGGTGAAGCTGATAGCTCGACCTTGGGACACATGTTTGATGTAGATCGTGTTCCAAAATT
1 TTGTCGGGAGAAGCTGATAACTCGACCTTGGAACACATGTTTGATGTAGATCGTGTTCCAAAATT
27180065 TGTTTTAGTGATAATTTCGTT
66 TGTTTTAGTGATAATTTCGTT
27180086 TTGTCGGGAGAAGCTGATAACTCGACCTTGGAACACATGTTTGATGTAGATCGTGTTCCAAAATT
1 TTGTCGGGAGAAGCTGATAACTCGACCTTGGAACACATGTTTGATGTAGATCGTGTTCCAAAATT
*
27180151 TGTTTTAGTGATGATTTCGTT
66 TGTTTTAGTGATAATTTCGTT
27180172 ATATCTTTCA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (86 bp):
TTGTCGGGAGAAGCTGATAACTCGACCTTGGAACACATGTTTGATGTAGATCGTGTTCCAAAATT
TGTTTTAGTGATAATTTCGTT
Found at i:27181066 original size:24 final size:26
Alignment explanation
Indices: 27181018--27181068 Score: 79
Period size: 24 Copynumber: 2.0 Consensus size: 26
27181008 TAAAGGATTC
27181018 TTGATTTGTAGTTTACTATAATTTGGG
1 TTGATTTGTAGTTTA-TATAATTTGGG
27181045 TTGATTTGTAG-TT-TATAATTTGGG
1 TTGATTTGTAGTTTATATAATTTGGG
27181069 CAGGTAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 11 0.46
26 2 0.08
27 11 0.46
ACGTcount: A:0.22, C:0.02, G:0.24, T:0.53
Consensus pattern (26 bp):
TTGATTTGTAGTTTATATAATTTGGG
Found at i:27183420 original size:2 final size:2
Alignment explanation
Indices: 27183413--27183448 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
27183403 CTCACTAGTG
27183413 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27183449 GTCNNNNNNN
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27183559 original size:2 final size:2
Alignment explanation
Indices: 27183552--27183584 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
27183542 NNNNNNNNNN
27183552 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27183585 GCATGCATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27189632 original size:51 final size:51
Alignment explanation
Indices: 27189510--27189687 Score: 216
Period size: 51 Copynumber: 3.5 Consensus size: 51
27189500 GATGGTGATG
* *
27189510 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG--AATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAAT-ATTGGTCACA
* * * * * *
27189560 TGTGTAGTACTATGTGTAGGCTACTATGCGTATCGGATAATTTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAATATTGGTCACA
* ** *
27189611 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAATATTGGTCACA
*
27189662 TGTGTAGTACTATGTACAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
27189688 TGTGAACTGA
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
50 33 0.31
51 71 0.66
52 3 0.03
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAATATTGGTCACA
Found at i:27189691 original size:26 final size:26
Alignment explanation
Indices: 27189611--27189691 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
27189601 TTTGATCACG
*
27189611 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTACAGGCTACTA
* *
27189637 CGTGTA-T-CGAATGGTA-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTACA-GGCT-ACTA
27189662 TGTGTAGTACTATGTACAGGCTACTA
1 TGTGTAGTACTATGTACAGGCTACTA
27189688 TGTG
1 TGTG
27189692 AACTGAACAT
Statistics
Matches: 41, Mismatches: 5, Indels: 18
0.64 0.08 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.44
26 21 0.51
27 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTACAGGCTACTA
Found at i:27189749 original size:45 final size:46
Alignment explanation
Indices: 27189698--27189787 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 46
27189688 TGTGAACTGA
* * *
27189698 ACATCATTGATTAGTAAGGTGG-TTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTTGCTATGTGCTAAATCCACCGG
27189743 ACATCATTGATTAATAAGGTGGTTTGCTATGTGCTAAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTTGCTATGTGCTAAATCCACCG
27189788 AGTATCTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 21 0.51
46 20 0.49
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (46 bp):
ACATCATTGATTAATAAGGTGGTTTGCTATGTGCTAAATCCACCGG
Found at i:27195003 original size:28 final size:28
Alignment explanation
Indices: 27194963--27195019 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
27194953 TATAACTAGG
27194963 TCACGAGCTAAGAACTTTAAAGAAGCTT
1 TCACGAGCTAAGAACTTTAAAGAAGCTT
27194991 TCACGAGCTAAGAACTTTAAAGAAGCTT
1 TCACGAGCTAAGAACTTTAAAGAAGCTT
27195019 T
1 T
27195020 GGCAAGCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.26
Consensus pattern (28 bp):
TCACGAGCTAAGAACTTTAAAGAAGCTT
Found at i:27195027 original size:28 final size:28
Alignment explanation
Indices: 27194963--27195028 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
27194953 TATAACTAGG
*
27194963 TCACGAGCTAAGAACTTTAAAGAAGCTT
1 TCACAAGCTAAGAACTTTAAAGAAGCTT
*
27194991 TCACGAGCTAAGAACTTTAAAGAAGCTT
1 TCACAAGCTAAGAACTTTAAAGAAGCTT
**
27195019 TGGCAAGCTA
1 TCACAAGCTA
27195029 TGTGGATTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (28 bp):
TCACAAGCTAAGAACTTTAAAGAAGCTT
Found at i:27198507 original size:20 final size:20
Alignment explanation
Indices: 27198482--27198526 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
27198472 TAAATACACA
27198482 TAATTAAAATT-AGACACAAT
1 TAATT-AAATTAAGACACAAT
*
27198502 TAATTAAGTTAAGACACAAT
1 TAATTAAATTAAGACACAAT
27198522 TAATT
1 TAATT
27198527 CGGTTGGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (20 bp):
TAATTAAATTAAGACACAAT
Found at i:27202555 original size:18 final size:17
Alignment explanation
Indices: 27202532--27202570 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
27202522 CTCTTTTTAC
27202532 TCTTTTTCATTCTCTTTT
1 TCTTTTTCATT-TCTTTT
*
27202550 TCTTTTTTGATTTCTTTT
1 TC-TTTTTCATTTCTTTT
27202568 TCT
1 TCT
27202571 GTCTTCTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 1 0.05
18 10 0.53
19 8 0.42
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (17 bp):
TCTTTTTCATTTCTTTT
Found at i:27206789 original size:637 final size:627
Alignment explanation
Indices: 27205549--27206806 Score: 1676
Period size: 637 Copynumber: 2.0 Consensus size: 627
27205539 ATTTATTACC
*
27205549 AAGGCCTTAGATACGTACACAAAGGAAAAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAA
1 AAGGCCTTAGATACGTACACAAAGGAAAAAGAAAATCAAGATTCACTTTCTTATTTTCAAGAAAA
*
27205614 TCAAGAAACCTAATCTTGGTCCAATTTTGTTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAG
66 TCAAGAAACCGAATCTTGGTCCAATTTTGTTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAG
* * * * *
27205679 ATTTCAAATCTTGGAAATCTTGGTCCAAGAAACCGAATCTTGCAGCTAAGGCGCATTGGATCTCT
131 ATTTCAAATCTTGCAAATCCTCGTCCAAGAAACCGAATCTTGCAACTAAGGCGCATTGGATCTCA
* * * *
27205744 GTTACGAGCATCAACGAATCAATTTCGGAAGCAAACGGACTACAGCCCAGGTTCTTGAAGGCAAG
196 GTTACGAGCATCAACGAACCAATTTCGGAAGCAAACAGACTACAGCCCAAGTTCTTGAAGACAAG
* * *
27205809 GCCCAATAAGATGTTCCAAGCCCAATCAAGAAAGTTGAATGAGACTTAGTTGAAAATCAGGCCAA
261 GCCCAATAAGATGTCCCAAGCCCAATCAAGAAAGTTAAATGAGACTTAGCTGAAAATCAGGCCAA
*
27205874 ATTGTCAAAGTGGCCCAATTTGTAAAATTTTAATTCTTTAAATACCTAGTTTAATTTTTAGACTT
326 ATAGTCAAAGTGGCCC--------AAATTTTAATTCTTTAAATACCTAGTTTAATTTTTAGACTT
* * * * * *
27205939 TATGATTAATGCCTATGTAAAAAAATTCAGCCCAAGCAGCCCATTAAATGCCTTGGCCGAATTTT
383 TATGATAAATGACTATGT-AAAAAATTCAGCCCAAGCAGCCCATTAAAGGACTTGGACGAATATT
* * * *
27206004 TCCCTCTAAATTTAATAATTAGGTTTTTTTTTTAGTTTTCCTATTAGGACAAGGAAAATAGTTAG
447 CCCCTCTAAAGTTAATAATTAGGTTTTTTTTTAAGTTTTCCTAGTAGGACAAGGAAAATAGTTAG
* *
27206069 AAGGCCTATATGTATGGCTTGGCCAACCACCTTTATACAACATTACACATTAAACAACACATTGA
512 AAGGCCTATATATATGGCTTGGCCAACCACCTTTACACAACATTACACATTAAACAACACATTGA
27206134 AATCAGATTTTATTGAGTGAAAAATTCTCTTTGAGTTTTGATACGAGTCAAA
577 AATCAGATTTTATTGAGTG-AAAATTCTCTTTGAGTTTTGATACGAGTCAAA
* * *
27206186 AAGGCCTTAGATGCGTATACGAAGGAAAAAGAAAATCAAGATTCACTTTCTTATTTTCAAGAAAA
1 AAGGCCTTAGATACGTACACAAAGGAAAAAGAAAATCAAGATTCACTTTCTTATTTTCAAGAAAA
* *
27206251 TCAAGAAACCGAATCTTGGTCCAATTTTGTTGTTTTGAGCGATTTCAAGAATCAAGAAAATCAAT
66 TCAAGAAACCGAATCTTGGTCCAATTTTGTTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAG
27206316 ATTTCAAATCTTGCAAATCCTCGTCCAAGAAACCGAATCTTGCAACTAAGGCGCATTGGATCTCA
131 ATTTCAAATCTTGCAAATCCTCGTCCAAGAAACCGAATCTTGCAACTAAGGCGCATTGGATCTCA
* * * *
27206381 GTTACGAGCATTAAC-AAGCCAATTTTGGGAG-AGAACAGATTACAAGCCCAAGTTCTTGAAGAC
196 GTTACGAGCATCAACGAA-CCAATTTCGGAAGCA-AACAGACTAC-AGCCCAAGTTCTTGAAGAC
*
27206444 AAGGCCCAATAAGATGTCCCAAGCCCAAT-ACAG-AAGTTTAAATTAGACTTAGCTGAAAATCAG
258 AAGGCCCAATAAGATGTCCCAAGCCCAATCA-AGAAAG-TTAAATGAGACTTAGCTGAAAATCAG
*
27206507 GCCAAATAGTCAAAGTGGCCC-AA-TTTAATTCTTTAAATA-CTGAATTTTAATTTTTAGACTTT
321 GCCAAATAGTCAAAGTGGCCCAAATTTTAATTCTTTAAATACCT--AGTTTAATTTTTAGACTTT
* * * *
27206569 ATGAATAAATTATTATGT-AAAAATTTAGTCCAAG-AGGCCCATTTAAAGGACTTGGACGAA-AT
384 ATG-ATAAATGACTATGTAAAAAATTCAGCCCAAGCA-GCCCA-TTAAAGGACTTGGACGAATAT
* * ** *
27206631 TCCCCTTTGAAAGTTAA-AATTAGGGTTTTTTTTATAAGTTTTCCTAGTAGGGCTGGGAAAGTAG
446 TCCCCTCT-AAAGTTAATAATTA-GGTTTTTTTT-TAAGTTTTCCTAGTAGGACAAGGAAAATAG
* * * *
27206695 TTAGGAGGCCTATATATATGGCTTGGCCAGCCACCCTTATACACATTACATTACAC-TTGAAGAA
508 TTAGAAGGCCTATATATATGGCTTGGCCAACCA-CCTT-TACACA--ACATTACACATTAAACAA
* *
27206759 TACATTGAAATCAGATTTGTTTTGTTGAGTGAAAATTCTCTTTGAGTT
569 CACATTGAAATCAGA----TTTTATTGAGTGAAAATTCTCTTTGAGTT
27206807 CTCCAAGAAT
Statistics
Matches: 547, Mismatches: 53, Indels: 43
0.85 0.08 0.07
Matches are distributed among these distances:
627 3 0.01
628 47 0.09
629 55 0.10
630 64 0.12
631 4 0.01
632 5 0.01
633 20 0.04
634 9 0.02
636 20 0.04
637 230 0.42
638 90 0.16
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (627 bp):
AAGGCCTTAGATACGTACACAAAGGAAAAAGAAAATCAAGATTCACTTTCTTATTTTCAAGAAAA
TCAAGAAACCGAATCTTGGTCCAATTTTGTTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAG
ATTTCAAATCTTGCAAATCCTCGTCCAAGAAACCGAATCTTGCAACTAAGGCGCATTGGATCTCA
GTTACGAGCATCAACGAACCAATTTCGGAAGCAAACAGACTACAGCCCAAGTTCTTGAAGACAAG
GCCCAATAAGATGTCCCAAGCCCAATCAAGAAAGTTAAATGAGACTTAGCTGAAAATCAGGCCAA
ATAGTCAAAGTGGCCCAAATTTTAATTCTTTAAATACCTAGTTTAATTTTTAGACTTTATGATAA
ATGACTATGTAAAAAATTCAGCCCAAGCAGCCCATTAAAGGACTTGGACGAATATTCCCCTCTAA
AGTTAATAATTAGGTTTTTTTTTAAGTTTTCCTAGTAGGACAAGGAAAATAGTTAGAAGGCCTAT
ATATATGGCTTGGCCAACCACCTTTACACAACATTACACATTAAACAACACATTGAAATCAGATT
TTATTGAGTGAAAATTCTCTTTGAGTTTTGATACGAGTCAAA
Found at i:27209482 original size:18 final size:20
Alignment explanation
Indices: 27209459--27209503 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
27209449 AAAGGAAGAC
27209459 AGAAAAACA-AATCAAAAA-
1 AGAAAAACAGAATCAAAAAG
* *
27209477 AGAAAAAGAGAATGAAAAAG
1 AGAAAAACAGAATCAAAAAG
27209497 AGAAAAA
1 AGAAAAA
27209504 AGAGATTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 8 0.35
20 7 0.30
ACGTcount: A:0.76, C:0.04, G:0.16, T:0.04
Consensus pattern (20 bp):
AGAAAAACAGAATCAAAAAG
Found at i:27209494 original size:19 final size:20
Alignment explanation
Indices: 27209459--27209508 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
27209449 AAAGGAAGAC
*
27209459 AGAAAAACA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
27209477 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
27209497 AGAAAAAAGAGA
1 AG-AAAAAGAGA
27209509 TTGAGAGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 8 0.30
19 8 0.30
20 2 0.07
21 9 0.33
ACGTcount: A:0.74, C:0.04, G:0.18, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:27209555 original size:12 final size:14
Alignment explanation
Indices: 27209532--27209564 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
27209522 GGACACAGAC
27209532 AAGAAGATTGAA-A
1 AAGAAGATTGAAGA
27209545 AAGAA-ATTGAAGA
1 AAGAAGATTGAAGA
27209558 AAGAAGA
1 AAGAAGA
27209565 GAAAATGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.33
13 11 0.61
14 1 0.06
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (14 bp):
AAGAAGATTGAAGA
Found at i:27211279 original size:18 final size:18
Alignment explanation
Indices: 27211247--27211323 Score: 100
Period size: 18 Copynumber: 4.3 Consensus size: 18
27211237 TTCTCTCACC
* *
27211247 TTTTCGATTTATTTTTCT
1 TTTTCAATTTCTTTTTCT
* *
27211265 TTTGCAATTTTTTTTTCT
1 TTTTCAATTTCTTTTTCT
*
27211283 TTTTCACTTTCTTTTTCT
1 TTTTCAATTTCTTTTTCT
*
27211301 TTTTCACTTTCTTTTTCT
1 TTTTCAATTTCTTTTTCT
27211319 TTTTC
1 TTTTC
27211324 TTCTTTTTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.08, C:0.17, G:0.03, T:0.73
Consensus pattern (18 bp):
TTTTCAATTTCTTTTTCT
Found at i:27211337 original size:6 final size:6
Alignment explanation
Indices: 27211258--27211325 Score: 66
Period size: 6 Copynumber: 11.3 Consensus size: 6
27211248 TTTCGATTTA
* * **
27211258 TTTTTC TTTTGC AATTTT- TTTTTC TTTTTC ACTTTC TTTTTC TTTTTC
1 TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
**
27211306 ACTTTC TTTTTC TTTTTC TT
1 TTTTTC TTTTTC TTTTTC TT
27211326 CTTTTTCATT
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
5 4 0.08
6 41 0.85
7 3 0.06
ACGTcount: A:0.06, C:0.18, G:0.01, T:0.75
Consensus pattern (6 bp):
TTTTTC
Found at i:27215846 original size:20 final size:20
Alignment explanation
Indices: 27215821--27215865 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
27215811 TAAATACACA
27215821 TAATTAAAATT-AGACACAAT
1 TAATT-AAATTAAGACACAAT
27215841 TAATTAAATTAAGACACAAT
1 TAATTAAATTAAGACACAAT
27215861 TAATT
1 TAATT
27215866 CGGTTGGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.33
Consensus pattern (20 bp):
TAATTAAATTAAGACACAAT
Found at i:27217491 original size:41 final size:41
Alignment explanation
Indices: 27217431--27217510 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
27217421 AGACACAATT
*
27217431 AATTCAGCTAGACACATTAAACAACAGCAGCCAATAAATCA
1 AATTCAGCTAGACAAATTAAACAACAGCAGCCAATAAATCA
* * * *
27217472 AATTCAGCTGGACAAATTAAATAGCAGCAGCTAATAAAT
1 AATTCAGCTAGACAAATTAAACAACAGCAGCCAATAAAT
27217511 TTGTCCTAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.20
Consensus pattern (41 bp):
AATTCAGCTAGACAAATTAAACAACAGCAGCCAATAAATCA
Found at i:27217665 original size:17 final size:18
Alignment explanation
Indices: 27217633--27217668 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
27217623 TTTTGAGCTG
27217633 AACTTAATTAAATTAACT
1 AACTTAATTAAATTAACT
*
27217651 AACTT-ATTTAATTAACT
1 AACTTAATTAAATTAACT
27217668 A
1 A
27217669 TGTTTATTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (18 bp):
AACTTAATTAAATTAACT
Found at i:27238062 original size:12 final size:12
Alignment explanation
Indices: 27238047--27238079 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
27238037 TTATGAAAAT
27238047 TACATTGAATTA
1 TACATTGAATTA
27238059 TACATTGAATTA
1 TACATTGAATTA
27238071 TACATTGAA
1 TACATTGAA
27238080 ATCAGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.39
Consensus pattern (12 bp):
TACATTGAATTA
Found at i:27239559 original size:12 final size:11
Alignment explanation
Indices: 27239542--27239591 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
27239532 AATGAAATCG
27239542 AGAAATGAAAAA
1 AGAAATG-AAAA
27239554 AGAAATGAAAGA
1 AGAAATGAAA-A
*
27239566 A-AAA-GAACA
1 AGAAATGAAAA
27239575 AGAAATCGAAAA
1 AGAAAT-GAAAA
27239587 AGAAA
1 AGAAA
27239592 ATGAGAGTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
9 2 0.06
10 6 0.19
11 6 0.19
12 18 0.56
ACGTcount: A:0.72, C:0.04, G:0.18, T:0.06
Consensus pattern (11 bp):
AGAAATGAAAA
Found at i:27239623 original size:21 final size:19
Alignment explanation
Indices: 27239550--27239624 Score: 62
Period size: 21 Copynumber: 3.7 Consensus size: 19
27239540 CGAGAAATGA
27239550 AAAAAGAAATGAAAGAAAAAG
1 AAAAAGAAATG--AGAAAAAG
* *
27239571 AACAAGAAAT-CGAAAAAG
1 AAAAAGAAATGAGAAAAAG
* *
27239589 AAAATGAGAGTGAGAAAAAG
1 AAAAAGA-AATGAGAAAAAG
27239609 AAAAAAGAAATTGAGA
1 -AAAAAGAAA-TGAGA
27239625 TTGAAAAAGG
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
18 12 0.29
19 2 0.05
20 8 0.19
21 20 0.48
ACGTcount: A:0.68, C:0.03, G:0.21, T:0.08
Consensus pattern (19 bp):
AAAAAGAAATGAGAAAAAG
Found at i:27239648 original size:18 final size:18
Alignment explanation
Indices: 27239564--27239648 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 18
27239554 AGAAATGAAA
* *
27239564 GAAAAAGAACAAGAAATC
1 GAAAAAGAAAAAGAAATT
* * *
27239582 GAAAAAGAAAATGAGAGTGA
1 GAAAAAGAAAAAGA-AAT-T
27239602 GAAAAAGAAAAAAGAAATT
1 GAAAAAG-AAAAAGAAATT
* ** *
27239621 GAGATTGAAAAAGGAATT
1 GAAAAAGAAAAAGAAATT
27239639 GAAAAAGAAA
1 GAAAAAGAAA
27239649 GAAAAGACAA
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
18 29 0.58
19 6 0.12
20 9 0.18
21 6 0.12
ACGTcount: A:0.65, C:0.02, G:0.22, T:0.11
Consensus pattern (18 bp):
GAAAAAGAAAAAGAAATT
Found at i:27241309 original size:20 final size:20
Alignment explanation
Indices: 27241277--27241324 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
27241267 TCCTTGGTTT
*
27241277 AGCTCACTTGAGCTCAAGTC
1 AGCTCATTTGAGCTCAAGTC
* *
27241297 AGGTCATTTGAGCTCAATTC
1 AGCTCATTTGAGCTCAAGTC
27241317 AGCTCATT
1 AGCTCATT
27241325 GAATTAGCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (20 bp):
AGCTCATTTGAGCTCAAGTC
Found at i:27241704 original size:16 final size:16
Alignment explanation
Indices: 27241666--27241707 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
27241656 GTATGGGAGT
*
27241666 ATACATGAATGGCTGA
1 ATACATGGATGGCTGA
*
27241682 ATACATGGATGGCTGG
1 ATACATGGATGGCTGA
*
27241698 ATTCATGGAT
1 ATACATGGAT
27241708 ATGGCTCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.29
Consensus pattern (16 bp):
ATACATGGATGGCTGA
Found at i:27244192 original size:18 final size:18
Alignment explanation
Indices: 27244169--27244207 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27244159 AAAGGAAGAC
27244169 AGAAAAACA-AATCGAAAA
1 AGAAAAACAGAAT-GAAAA
*
27244187 AGAAAAAGAGAATGAAAA
1 AGAAAAACAGAATGAAAA
27244205 AGA
1 AGA
27244208 GCAAAAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.72, C:0.05, G:0.18, T:0.05
Consensus pattern (18 bp):
AGAAAAACAGAATGAAAA
Done.