Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 273 of 343
Found at i:90665275 original size:43 final size:42
Alignment explanation
Indices: 90665221--90665334 Score: 108
Period size: 44 Copynumber: 2.6 Consensus size: 42
90665211 AATAAAACAT
* * *
90665221 AATAAATAATAATATATATAATAAAATAATTTTATAATATATA
1 AATAAATAATAATATATATAATAAAACAA-TTAACAATATATA
*
90665264 ATATAAA-AATAAGGTATA-AAAATAAAACAATTAACAATATATA
1 A-ATAAATAATAA--TATATATAATAAAACAATTAACAATATATA
90665307 AA-AAATATATACATATATAATAATAAAA
1 AATAAATA-ATA-ATATAT-ATAATAAAA
90665335 ATAAACATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
41 3 0.05
42 6 0.10
43 21 0.36
44 24 0.41
45 4 0.07
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (42 bp):
AATAAATAATAATATATATAATAAAACAATTAACAATATATA
Found at i:90666314 original size:13 final size:13
Alignment explanation
Indices: 90666296--90666322 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
90666286 ATGATTCGAA
90666296 GCCTGGAATCACG
1 GCCTGGAATCACG
90666309 GCCTGGAATCACG
1 GCCTGGAATCACG
90666322 G
1 G
90666323 TGTTGATGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.33, T:0.15
Consensus pattern (13 bp):
GCCTGGAATCACG
Found at i:90668788 original size:27 final size:27
Alignment explanation
Indices: 90668737--90668794 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
90668727 AGTCCAACGA
* *
90668737 GACATTAAACACAAGATAGCCTGATGG
1 GACATTAAACACAAGATAGCATGATAG
* *
90668764 GACATTAAACACGAGATAGTATGATAG
1 GACATTAAACACAAGATAGCATGATAG
90668791 GACA
1 GACA
90668795 CTGAACAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (27 bp):
GACATTAAACACAAGATAGCATGATAG
Found at i:90668801 original size:27 final size:27
Alignment explanation
Indices: 90668737--90668801 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
90668727 AGTCCAACGA
* * *
90668737 GACATTAAACACAAGATAGCCTGATGG
1 GACACTAAACACAAGATAGCATGATAG
* * *
90668764 GACATTAAACACGAGATAGTATGATAG
1 GACACTAAACACAAGATAGCATGATAG
*
90668791 GACACTGAACA
1 GACACTAAACA
90668802 GGGGATGGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (27 bp):
GACACTAAACACAAGATAGCATGATAG
Found at i:90675889 original size:25 final size:25
Alignment explanation
Indices: 90675861--90675910 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
90675851 TATTGTAAAG
90675861 ATCAACTTTGTTGAAGGTTAGTTAC
1 ATCAACTTTGTTGAAGGTTAGTTAC
90675886 ATCAACTTTGTTGAAGGTTAGTTAC
1 ATCAACTTTGTTGAAGGTTAGTTAC
90675911 TTCTTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (25 bp):
ATCAACTTTGTTGAAGGTTAGTTAC
Found at i:90679228 original size:11 final size:11
Alignment explanation
Indices: 90679201--90679244 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 11
90679191 TAAAATAGTA
90679201 TATATTATTTTT
1 TATATTA-TTTT
90679213 ATATATTATTTT
1 -TATATTATTTT
90679225 TATA-TATTATT
1 TATATTATT-TT
90679236 TATATTATT
1 TATATTATT
90679245 ACACATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 4 0.14
11 10 0.34
12 8 0.28
13 7 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TATATTATTTT
Found at i:90679230 original size:15 final size:13
Alignment explanation
Indices: 90679199--90679245 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
90679189 TATAAAATAG
90679199 TATATATTATTTT
1 TATATATTATTTT
90679212 TATATATTATTTT
1 TATATATTATTTT
*
90679225 TATATATTATTTA
1 TATATATTATTTT
90679238 TAT-TATTA
1 TATATATTA
90679246 CACATTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 5 0.15
13 28 0.85
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TATATATTATTTT
Found at i:90679283 original size:18 final size:18
Alignment explanation
Indices: 90679256--90679300 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
90679246 CACATTTTAT
* *
90679256 TTATAAATTTAGTATATA
1 TTATATATTTACTATATA
90679274 TTATATATTTTACTATATA
1 TTATATA-TTTACTATATA
90679293 -TATATATT
1 TTATATATT
90679301 ATTCCTTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 2 0.08
18 12 0.50
19 10 0.42
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (18 bp):
TTATATATTTACTATATA
Found at i:90679285 original size:19 final size:18
Alignment explanation
Indices: 90679263--90679300 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
90679253 TATTTATAAA
*
90679263 TTTAGTATATATTATATAT
1 TTTACTATATA-TATATAT
90679282 TTTACTATATATATATAT
1 TTTACTATATATATATAT
90679300 T
1 T
90679301 ATTCCTTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTACTATATATATATAT
Found at i:90679372 original size:9 final size:9
Alignment explanation
Indices: 90679360--90679393 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
90679350 ATTAATTGTG
90679360 TAAATTTTT
1 TAAATTTTT
90679369 TAAATTTTT
1 TAAATTTTT
90679378 TAAATTATTAT
1 TAAATT-TT-T
90679389 TAAAT
1 TAAAT
90679394 AATAGTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 15 0.65
10 2 0.09
11 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TAAATTTTT
Found at i:90679484 original size:17 final size:16
Alignment explanation
Indices: 90679460--90679496 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
90679450 TATTTTATTT
90679460 ATATATATATTATTAC
1 ATATATATATTATTAC
*
90679476 ATATCATATATTATTAT
1 ATAT-ATATATTATTAC
90679493 ATAT
1 ATAT
90679497 TATTCCCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATATATATTATTAC
Found at i:90679494 original size:10 final size:10
Alignment explanation
Indices: 90679437--90679531 Score: 54
Period size: 10 Copynumber: 9.2 Consensus size: 10
90679427 ATCACATCAT
90679437 TTATAT-TTCA
1 TTATATATT-A
*
90679447 TTATATTTTA
1 TTATATATTA
90679457 TTTATATATATA
1 -TTATATAT-TA
*
90679469 TTAT-TACATA
1 TTATATA-TTA
*
90679479 TCATATATTA
1 TTATATATTA
90679489 TTATATATTA
1 TTATATATTA
*
90679499 TTCCCTATATTA
1 TT--ATATATTA
*
90679511 TCT-T-TTTTA
1 T-TATATATTA
90679520 TTATATATTA
1 TTATATATTA
90679530 TT
1 TT
90679532 TCATTATTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
8 1 0.01
9 6 0.09
10 34 0.51
11 15 0.22
12 10 0.15
13 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (10 bp):
TTATATATTA
Found at i:90691772 original size:219 final size:219
Alignment explanation
Indices: 90691388--90691961 Score: 854
Period size: 219 Copynumber: 2.6 Consensus size: 219
90691378 GGCTAAAGCA
* * * * *
90691388 TAGCAGATTTGACCTTT-AGGTGTTTACGCTGAAGCATATCAAAGATGATTTGGCATCTCTGTAT
1 TAGCAGATTTG-GCTTTCACGTGTTTACGCTGAAACAGATCTAAGATGATTTGGCATCTCTGTAT
* * * * *
90691452 TGTCAGGGAACAAATCGAAAAAACAGATTT-GCAATCACCATATTCGACGGAGAGCAGATCGAAG
65 TGTCAGAGAACAAATCGAAGAAACAGATTTGGC-ATCTCCATATTCGATGGAGAGCAGATCAAAG
90691516 AATAGCAGATCTAACCTTCAGATGTTTTTGCATCGAAGCAGATCCAAGATGATTTGGCATCCTTG
129 AATAGCAGATCTAACCTTCAGATGTTTTTGCATCGAAGCAGATCCAAGATGATTTGGCATCCTTG
**
90691581 TGTTTACAAGGAGCAGATCGAAGAAG
194 CATTTACAAGGAGCAGATCGAAGAAG
*
90691607 TAGCAGATTTGGCTTTCACGTGTTTGCGCTGAAACAGATCTAAGATGATTTGGCATCTCTGTATT
1 TAGCAGATTTGGCTTTCACGTGTTTACGCTGAAACAGATCTAAGATGATTTGGCATCTCTGTATT
* *
90691672 GTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGATGGAGAGCTGATCAAAGAC
66 GTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAGATCAAAGA-
* *
90691737 ATAGCAGATCTAACCTTCGGATG-TTTTGTATCGAAGCAGATCCAAGATGATTTGGCATCCTTGC
130 ATAGCAGATCTAACCTTCAGATGTTTTTGCATCGAAGCAGATCCAAGATGATTTGGCATCCTTGC
*
90691801 ATTTACAAGGAGCAGATCGAAGACG
195 ATTTACAAGGAGCAGATCGAAGAAG
* * *
90691826 TAGGAGATTTGGCTTTCACGTGTTTACGCTGAAACAGATTTAAGATGATTTGGCATCTCTGAATT
1 TAGCAGATTTGGCTTTCACGTGTTTACGCTGAAACAGATCTAAGATGATTTGGCATCTCTGTATT
* * *
90691891 GTTAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTATATT-G-TCAGAGAGCAGATCAAAG-
66 GTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGAT-GGAGAGCAGATCAAAGA
90691953 ATAGCAGAT
130 ATAGCAGAT
90691962 TTGGTGTCTC
Statistics
Matches: 324, Mismatches: 27, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
216 9 0.03
217 1 0.00
218 19 0.06
219 271 0.84
220 24 0.07
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (219 bp):
TAGCAGATTTGGCTTTCACGTGTTTACGCTGAAACAGATCTAAGATGATTTGGCATCTCTGTATT
GTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAGATCAAAGAA
TAGCAGATCTAACCTTCAGATGTTTTTGCATCGAAGCAGATCCAAGATGATTTGGCATCCTTGCA
TTTACAAGGAGCAGATCGAAGAAG
Found at i:90691972 original size:44 final size:44
Alignment explanation
Indices: 90691872--90692233 Score: 458
Period size: 44 Copynumber: 8.2 Consensus size: 44
90691862 GATTTAAGAT
* * * * * *
90691872 GATTTGGCATCTCTGAATTGTTAGAGAACAAATCGAAGA-AACA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* * *
90691915 GATTTGGCATCTCTATATTGTCAGAGAGCAGATCAAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
*
90691959 GATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* * * * * **
90692003 GATTTGGCGGTCTCTATATTGTTAGATAACAAATCGAAGA-AATA
1 GATTTGGC-GTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* * *
90692047 GATTTGGCATCTCTATATTGTCAGAGAGCAGGTCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* * *
90692091 GATTTGGCGTCTCTGTATTGTGAGAGAGTAGATCAAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
*
90692135 GATTTGGCGTCTCTGTATTGTCAGAGAGCATATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* **
90692179 GATTTAGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAATA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
90692223 GATTTGGCGTC
1 GATTTGGCGTC
90692234 CCTGAGTGTG
Statistics
Matches: 274, Mismatches: 42, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
43 58 0.21
44 190 0.69
45 26 0.09
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
Found at i:90692272 original size:132 final size:132
Alignment explanation
Indices: 90691872--90692263 Score: 522
Period size: 132 Copynumber: 3.0 Consensus size: 132
90691862 GATTTAAGAT
* *
90691872 GATTTGGCATCTCTGAATTGTTAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTATATTGTC
1 GATTTGGCGTCTCTGTATTGTTAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTATATTGTC
* *
90691937 AGAGAGCAGATCAAAGATAGCAGATTTGGTGTCTCTGTATTGT-CAGAGAGCAGATCGAAGATAG
66 AGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTGCAGAGAGCAGATCGAAGATAG
90692001 CA
131 CA
* * *
90692003 GATTTGGCGGTCTCTATATTGTTAGATAACAAATCGAAGAAATAGATTTGGCATCTCTATATTGT
1 GATTTGGC-GTCTCTGTATTGTTAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTATATTGT
* * *
90692068 CAGAGAGCAGGTCGAAGATAGCAGATTTGGCGTCTCTGTATTGTG-AGAGAGTAGATCAAAGATA
65 CAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTGCAGAGAGCAGATCGAAGATA
90692132 GCA
130 GCA
* * * * * * *
90692135 GATTTGGCGTCTCTGTATTGTCAGAGAGCATATCGAAGATAGCAGATTTAGCGTCTCTGTATTGT
1 GATTTGGCGTCTCTGTATTGTTAGAGAACAAATCGAAGA-AACAGATTTGGCATCTCTATATTGT
** * * * *
90692200 CAGAGAGCAGATCGAAGATAATAGATTTGGCGTCCCTG-AGTGTGCA-AGAAGCAGGTTGAAGAT
65 CAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTGCAGAG-AGCAGATCGAAGAT
90692263 A
129 A
90692264 ACCAATTTGA
Statistics
Matches: 227, Mismatches: 29, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
131 41 0.18
132 186 0.82
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (132 bp):
GATTTGGCGTCTCTGTATTGTTAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTATATTGTC
AGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTGCAGAGAGCAGATCGAAGATAG
CA
Found at i:90693862 original size:25 final size:25
Alignment explanation
Indices: 90693810--90693856 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
90693800 TAAAATAGTA
* *
90693810 TATATTATTTTTATATATTATTCGT
1 TATATTATTTATATATATTATACGT
90693835 TATATTATTTATAT-TATTATAC
1 TATATTATTTATATATATTATAC
90693857 ATTTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (25 bp):
TATATTATTTATATATATTATACGT
Found at i:90693908 original size:19 final size:19
Alignment explanation
Indices: 90693821--90693908 Score: 56
Period size: 19 Copynumber: 4.6 Consensus size: 19
90693811 ATATTATTTT
90693821 TATATATTATTCGTTA-TATTA
1 TATATATTATT--TTACTA-TA
* * *
90693842 TTTATATTATTATAC-ATT
1 TATATATTATTTTACTATA
* * * *
90693860 TATTTATAAATTTAGTATA
1 TATATATTATTTTACTATA
90693879 TAT-TATATATTTTACTATA
1 TATATAT-TATTTTACTATA
90693898 TATATATTATT
1 TATATATTATT
90693909 CCTTGTGTTT
Statistics
Matches: 50, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
18 13 0.26
19 24 0.48
20 3 0.06
21 10 0.20
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.58
Consensus pattern (19 bp):
TATATATTATTTTACTATA
Found at i:90694073 original size:17 final size:16
Alignment explanation
Indices: 90694053--90694107 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 16
90694043 TATATTTCAT
90694053 TATATTTTATTTATATA
1 TATATTTTA-TTATATA
*
90694070 TATATTTTATTACATA
1 TATATTTTATTATATA
*
90694086 TCATATATTATTATATA
1 T-ATATTTTATTATATA
90694103 T-TATT
1 TATATT
90694108 CCCTATATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 3 0.09
16 7 0.21
17 23 0.70
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATTTTATTATATA
Found at i:90697603 original size:22 final size:21
Alignment explanation
Indices: 90697558--90697603 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
90697548 AATTATATCT
* *
90697558 TTTAAATATTATCATCTAGAG
1 TTTAAATATGAACATCTAGAG
*
90697579 TTTAAATATGAACTATCTAGGG
1 TTTAAATATGAAC-ATCTAGAG
90697601 TTT
1 TTT
90697604 TCATGTACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (21 bp):
TTTAAATATGAACATCTAGAG
Found at i:90702098 original size:103 final size:103
Alignment explanation
Indices: 90701925--90702115 Score: 253
Period size: 103 Copynumber: 1.9 Consensus size: 103
90701915 AAAAATTAAT
* **
90701925 AGTGTGTTGGGCTAAGTAACTAGGGTGGGGTGCTTGGGTTGTCATTCCACTTCGAGTCAAAAAGA
1 AGTGTGTTGGGCTAAGTAACTAGGGTAGGGTGCTTGCATTGTCATTCCACTTCGAGTCAAAAAGA
* *
90701990 ACAAAACATTTTTAAACAAAAAATAATAATAAATTAGG
66 ACAAAAAATTCTTAAACAAAAAATAATAATAAATTAGG
* *
90702028 AGTGTGTTGGGCTGAGTAACT-GAGGTATGGTGCTTGCATTGTCATTCCACTTC-ACGT-AAAAA
1 AGTGTGTTGGGCTAAGTAACTAG-GGTAGGGTGCTTGCATTGTCATTCCACTTCGA-GTCAAAAA
**
90702090 GGGCCAAAAAATTCTTAAACAAAAAA
64 -GAACAAAAAATTCTTAAACAAAAAA
90702116 ATATAAAATT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
102 7 0.09
103 69 0.91
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (103 bp):
AGTGTGTTGGGCTAAGTAACTAGGGTAGGGTGCTTGCATTGTCATTCCACTTCGAGTCAAAAAGA
ACAAAAAATTCTTAAACAAAAAATAATAATAAATTAGG
Found at i:90705698 original size:21 final size:20
Alignment explanation
Indices: 90705669--90705707 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
90705659 AAGAACGAAA
*
90705669 GAAAACGAAATTAGATCGAGG
1 GAAAACGAAAGTAG-TCGAGG
*
90705690 GAAATCGAAAGTAGTCGA
1 GAAAACGAAAGTAGTCGA
90705708 ATAGTCGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.46, C:0.10, G:0.28, T:0.15
Consensus pattern (20 bp):
GAAAACGAAAGTAGTCGAGG
Found at i:90706062 original size:41 final size:41
Alignment explanation
Indices: 90705964--90706082 Score: 143
Period size: 41 Copynumber: 2.9 Consensus size: 41
90705954 GTGTGATCCA
* *
90705964 TGTAAGAACATGTCTGGGACATTGGCACCGA-AGTGAGAAAACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATA-T--GAAAACG
*
90706007 TGTAAGACCATGTCTGGGACATTGGCATCGTATATG-ATACG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-ATATGAAAACG
* *
90706048 TGTAAGACCTTGTCTGGGACAGTGGCATCGATATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATG
90706083 TGATAGCATT
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
40 5 0.07
41 32 0.46
42 1 0.01
43 28 0.41
44 2 0.03
45 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGAAAACG
Found at i:90714000 original size:6 final size:6
Alignment explanation
Indices: 90713989--90714018 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
90713979 ATATTGACAA
90713989 ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT
90714019 TTCATGCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:90714536 original size:139 final size:139
Alignment explanation
Indices: 90714286--90714547 Score: 445
Period size: 139 Copynumber: 1.9 Consensus size: 139
90714276 CTTTTACCCC
* *
90714286 TATGCTCGTAAAATGATTTTCATTCAATTTCTTTGCACTTTAAGCCAAGCTGAATCATTTTCACA
1 TATGCTCGTAAAATGATTTTCATTCAATTTCTTTACACTTTAAGCCAAGCTGAATCATCTTCACA
* *
90714351 ACTATAGCATCCAACAATTCCACTAAATCACACTTTTATGACAAATTTATAACTTTTACAATTTC
66 ACTATAGAACCCAACAATTCCACTAAATCACACTTTTATGACAAATTTATAACTTTTACAATTTC
90714416 TTTGCACTT
131 TTTGCACTT
* *
90714425 TATGCTCGTAAAATGATTTTCATTCAATTTCTTTACACTTTAAGCCTAGCTGAATCATCTTCATA
1 TATGCTCGTAAAATGATTTTCATTCAATTTCTTTACACTTTAAGCCAAGCTGAATCATCTTCACA
*
90714490 ACTATAGAAACCCAA-AATTCCACTAAATCACACTTTTATGACAAATTTATAATTTTTA
66 ACTATAG-AACCCAACAATTCCACTAAATCACACTTTTATGACAAATTTATAACTTTTA
90714548 TAAATTAGTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
139 110 0.96
140 5 0.04
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.39
Consensus pattern (139 bp):
TATGCTCGTAAAATGATTTTCATTCAATTTCTTTACACTTTAAGCCAAGCTGAATCATCTTCACA
ACTATAGAACCCAACAATTCCACTAAATCACACTTTTATGACAAATTTATAACTTTTACAATTTC
TTTGCACTT
Found at i:90718678 original size:28 final size:26
Alignment explanation
Indices: 90718629--90718681 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
90718619 ACACATACTT
90718629 AGCCTTATATTCATGTAGTTCATATA
1 AGCCTTATATTCATGTAGTTCATATA
* *
90718655 AGCCTATATATTTCATTTATTTCATAT
1 AGCCT-TATA-TTCATGTAGTTCATAT
90718682 TTTAGTCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.22
27 4 0.17
28 14 0.61
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.47
Consensus pattern (26 bp):
AGCCTTATATTCATGTAGTTCATATA
Found at i:90720366 original size:31 final size:32
Alignment explanation
Indices: 90720301--90720380 Score: 117
Period size: 31 Copynumber: 2.5 Consensus size: 32
90720291 TCCATATATG
* * *
90720301 CATATACATTATATATATAATCAAGAGCCACA
1 CATATATATTATATATATAATCAAAACCCACA
90720333 CATATATATTATATATATAA-CAAAACCCACA
1 CATATATATTATATATATAATCAAAACCCACA
*
90720364 CATATGTATTATATATA
1 CATATATATTATATATA
90720381 ATACAACCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 25 0.57
32 19 0.43
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (32 bp):
CATATATATTATATATATAATCAAAACCCACA
Found at i:90720655 original size:22 final size:22
Alignment explanation
Indices: 90720630--90720677 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
90720620 AAATTGCAAT
90720630 GGTTTGCACCAAGAGAAATCAA
1 GGTTTGCACCAAGAGAAATCAA
90720652 GGTTTGCACCAAGAGAAATCAA
1 GGTTTGCACCAAGAGAAATCAA
90720674 GGTT
1 GGTT
90720678 CGCATATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (22 bp):
GGTTTGCACCAAGAGAAATCAA
Found at i:90723820 original size:2 final size:2
Alignment explanation
Indices: 90723815--90723839 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
90723805 TTTTTGACTA
90723815 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 A
90723840 ACTCCAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90726370 original size:32 final size:32
Alignment explanation
Indices: 90726329--90726391 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
90726319 TTTGCAAGAG
90726329 CTCGATCAAATTTTACACCATTAGCGACTATA
1 CTCGATCAAATTTTACACCATTAGCGACTATA
90726361 CTCGATCAAATTTTACACCATTAGCGACTAT
1 CTCGATCAAATTTTACACCATTAGCGACTAT
90726392 GTAATCACTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.32
Consensus pattern (32 bp):
CTCGATCAAATTTTACACCATTAGCGACTATA
Found at i:90734429 original size:39 final size:39
Alignment explanation
Indices: 90734383--90734462 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
90734373 AGCATGTATT
*
90734383 TTGACAGGTTTATGGTGGTATTTATAGTTCATATTTTGG
1 TTGACAGGTTTATGGTGGTATTTATAGATCATATTTTGG
* *
90734422 TTGACAGGTTTGTGGTGGTATTTATAGATGATATTTTGG
1 TTGACAGGTTTATGGTGGTATTTATAGATCATATTTTGG
90734461 TT
1 TT
90734463 TACTCTCGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.20, C:0.04, G:0.28, T:0.49
Consensus pattern (39 bp):
TTGACAGGTTTATGGTGGTATTTATAGATCATATTTTGG
Found at i:90746288 original size:46 final size:45
Alignment explanation
Indices: 90746136--90746353 Score: 144
Period size: 46 Copynumber: 4.7 Consensus size: 45
90746126 ATTGTGAGCT
* * * *
90746136 AGTGTAAGACATGTCTGGGACATGCATCGGCC-AC-ATCATGAGAGCC
1 AGTGTAAGACATGTCTAGAACATGCATCGGCCTACGA-GAT-A-AGTC
* * * *
90746182 AGTGTAAGACCATGTCTAGGACATGGCTTCGG--TATTGAGACGAA-TGC
1 AGTGTAAGA-CATGTCTAGAACAT-GCATCGGCCTA-CGAGA-TAAGT-C
*
90746229 TAGTGTAAGACATGTCTATAACATGCATCGGCCT-CGAGAAGTAAGTC
1 -AGTGTAAGACATGTCTAGAACATGCATCGGCCTACGAG-A-TAAGTC
* * *
90746276 AGTGTAAGACATGTCTAGGACATGCATCAG-CTACGAGATGAGTC
1 AGTGTAAGACATGTCTAGAACATGCATCGGCCTACGAGATAAGTC
*
90746320 AGTGTAAGACCATTGTCTGGAACATTGCATCGGC
1 AGTGTAAGA-CA-TGTCTAGAACA-TGCATCGGC
90746354 ACAGATATGC
Statistics
Matches: 136, Mismatches: 19, Indels: 32
0.73 0.10 0.17
Matches are distributed among these distances:
44 14 0.10
45 5 0.04
46 58 0.43
47 39 0.29
48 19 0.14
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTAGAACATGCATCGGCCTACGAGATAAGTC
Found at i:90746353 original size:93 final size:94
Alignment explanation
Indices: 90746133--90746353 Score: 222
Period size: 94 Copynumber: 2.4 Consensus size: 94
90746123 GTTATTGTGA
* * * ** *
90746133 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATCA-TGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTAGAACATGCATCGGCCTCGAGAAGT-A-AGTCAGTGTAAGACCATG
* * *
90746196 TCTAGGACATGGCTTCGGTATTGAGACGAAT
64 TCTAGGACATGGCATCGCTATCGAGACGAAT
*
90746227 GCTAGTGTAAGACATGTCTATAACATGCATCGGCCTCGAGAAGTAAGTCAGTGTAAGA-CATGTC
1 GCTAGTGTAAGACATGTCTAGAACATGCATCGGCCTCGAGAAGTAAGTCAGTGTAAGACCATGTC
* *
90746291 TAGGACAT-GCATCAGCTA-CGAGATGAGT
66 TAGGACATGGCATC-GCTATCGAGACGAAT
*
90746319 -C-AGTGTAAGACCATTGTCTGGAACATTGCATCGGC
1 GCTAGTGTAAGA-CA-TGTCTAGAACA-TGCATCGGC
90746354 ACAGATATGC
Statistics
Matches: 107, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
90 9 0.08
91 3 0.03
92 20 0.19
93 26 0.24
94 45 0.42
95 3 0.03
96 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTAGAACATGCATCGGCCTCGAGAAGTAAGTCAGTGTAAGACCATGTC
TAGGACATGGCATCGCTATCGAGACGAAT
Found at i:90747917 original size:74 final size:74
Alignment explanation
Indices: 90747796--90747946 Score: 230
Period size: 74 Copynumber: 2.0 Consensus size: 74
90747786 CTAGTGAAAG
* * *
90747796 TATGGGTCTAGCTATACATGCCATAATTGTATATTGATAGTGTGACAACTTCTGACGTTTATAAA
1 TATGGGTCTAGCTATACATGCCACAACTATATATTGATAGTGTGACAACTTCTGACGTTTATAAA
90747861 TTTTATTTT
66 TTTTATTTT
* * * **
90747870 TATGGGTGTTGCTATACATGCCACAACTATATATTTATAGTGTGACAACTTCTTCCGTTTATAAA
1 TATGGGTCTAGCTATACATGCCACAACTATATATTGATAGTGTGACAACTTCTGACGTTTATAAA
90747935 TTTTATTTT
66 TTTTATTTT
90747944 TAT
1 TAT
90747947 ATAGTAAATT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (74 bp):
TATGGGTCTAGCTATACATGCCACAACTATATATTGATAGTGTGACAACTTCTGACGTTTATAAA
TTTTATTTT
Found at i:90748874 original size:27 final size:27
Alignment explanation
Indices: 90748844--90749116 Score: 271
Period size: 27 Copynumber: 10.1 Consensus size: 27
90748834 AGTACTCCCA
90748844 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
90748871 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** * * **
90748898 ATTTTTAAAATTACCATTTTACCCTTA
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
90748925 ATTTACAGAATTACCATTTTACCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCG
* * ** *
90748952 AATTACAAAATTACTATTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
**
90748979 ATTTACAGAATTATTGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** * *
90749006 ATTTGTAAAATTACCGTTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
90749033 ATTTATAGAATTACTAG-TTTACCCTC-
1 ATTTACAGAATTAC-CGTTTTACCCTCG
* * *
90749059 AGTTTACAAAATTATCGTTTTACCATCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
* * *
90749087 ATTTATAGAATTATCGTTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
90749114 ATT
1 ATT
90749117 GTGAAATTAC
Statistics
Matches: 203, Mismatches: 39, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
26 2 0.01
27 199 0.98
28 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (27 bp):
ATTTACAGAATTACCGTTTTACCCTCG
Found at i:90749186 original size:54 final size:54
Alignment explanation
Indices: 90749121--90749316 Score: 268
Period size: 54 Copynumber: 3.6 Consensus size: 54
90749111 TTGATTGTGA
* * * *
90749121 AATTACTGAAATACCCCTGTAGGGTAGAATTTCTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
90749175 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
90749229 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
90749283 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACC
90749317 ATTTTGCCCC
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 123 0.99
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:90749316 original size:27 final size:27
Alignment explanation
Indices: 90749121--90749316 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
90749111 TTGATTGTGA
* *
90749121 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
90749148 AATTTCTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
90749175 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
90749202 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
90749229 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
90749256 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
90749283 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
90749310 AATTACC
1 AATTACC
90749317 ATTTTGCCCC
Statistics
Matches: 148, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:90749551 original size:26 final size:26
Alignment explanation
Indices: 90749515--90749600 Score: 118
Period size: 26 Copynumber: 3.3 Consensus size: 26
90749505 CGGAGGAAGC
*
90749515 GTTCTGGTGGCTATGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
*
90749541 GTTCTGGTGGCTCTACCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
90749567 GTATCTGGTGACTCTGTCACGATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
90749594 GTTCTGG
1 GTTCTGG
90749601 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 31 0.58
27 22 0.42
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:90749727 original size:6 final size:6
Alignment explanation
Indices: 90749718--90749873 Score: 135
Period size: 6 Copynumber: 25.8 Consensus size: 6
90749708 TTGCATTCAC
* * *
90749718 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * * *
90749766 ATTCTG -TTACTG ATTCTA ATTCTG ATTCTG -TCACCTA ATTTTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
*
90749815 ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG -TTACTG ATTCTG
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATT-CTG ATTCTG
90749863 ATTCTG ATTCT
1 ATTCTG ATTCT
90749874 CATTTTGGTT
Statistics
Matches: 121, Mismatches: 16, Indels: 26
0.74 0.10 0.16
Matches are distributed among these distances:
5 10 0.08
6 101 0.83
7 8 0.07
8 2 0.02
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:90749755 original size:30 final size:30
Alignment explanation
Indices: 90749721--90749850 Score: 155
Period size: 30 Copynumber: 4.5 Consensus size: 30
90749711 CATTCACATT
90749721 CTGATTCTGATTCTGATTCTGTTACTAATA
1 CTGATTCTGATTCTGATTCTGTTACTAATA
*
90749751 CTGATTCTGATTTTGATTCTG----T--TA
1 CTGATTCTGATTCTGATTCTGTTACTAATA
* * *
90749775 CTGATTCTAATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTGTTA-CTAATA
*
90749806 TTGATTCTGATTCTGATTCTGTTACTAATA
1 CTGATTCTGATTCTGATTCTGTTACTAATA
*
90749836 TTGATTCTGATTCTG
1 CTGATTCTGATTCTG
90749851 TTACTGATTC
Statistics
Matches: 85, Mismatches: 8, Indels: 14
0.79 0.07 0.13
Matches are distributed among these distances:
24 21 0.25
26 1 0.01
29 1 0.01
30 40 0.47
31 22 0.26
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (30 bp):
CTGATTCTGATTCTGATTCTGTTACTAATA
Found at i:90753569 original size:40 final size:41
Alignment explanation
Indices: 90753362--90753579 Score: 323
Period size: 41 Copynumber: 5.4 Consensus size: 41
90753352 CATTTTAAGA
* *
90753362 AAAACGCCGCTAAAGA-CAGAGCATTAGTGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
*
90753402 AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* *
90753443 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGTT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
*
90753484 AAAACGCCGCTAAAAACCAGAGCATTAGCGACGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* ** *
90753525 AAAACGCCGCTAAAAACCAAAGCA-TAGCTACGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
*
90753565 AAAACGTCGCTAAAA
1 AAAACGCCGCTAAAA
90753580 GTCATATAAC
Statistics
Matches: 164, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 43 0.26
41 121 0.74
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
Found at i:90754017 original size:25 final size:25
Alignment explanation
Indices: 90753988--90754041 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
90753978 GTGATTTTGA
90753988 ATGTGGAATTAGCATTTGTTGAACT
1 ATGTGGAATTAGCATTTGTTGAACT
90754013 ATGTGGAATTAGCATTTGTTGAACT
1 ATGTGGAATTAGCATTTGTTGAACT
90754038 ATGT
1 ATGT
90754042 ATAATTTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (25 bp):
ATGTGGAATTAGCATTTGTTGAACT
Found at i:90754657 original size:15 final size:15
Alignment explanation
Indices: 90754637--90754667 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
90754627 TTTAATTTAG
*
90754637 AAGATAAATGTATAT
1 AAGATAAATATATAT
90754652 AAGATAAATATATAT
1 AAGATAAATATATAT
90754667 A
1 A
90754668 TAAATTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:90765917 original size:43 final size:43
Alignment explanation
Indices: 90765713--90765948 Score: 256
Period size: 43 Copynumber: 5.5 Consensus size: 43
90765703 ACTGGGCAAA
* * * * * * *
90765713 TTAGCGACGTTTTTTAAAAAAACCCCGCTAAAAGTACAGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
* * *
90765756 CTAACGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGATCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
* * * * * * *
90765799 CTAGCGGCGTTTTTTAAAAAAGTGCCGCTAAAAGTACAGGTAT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
* *
90765842 TTAGCGGCGTTTTTTATAAGAGCGCCACTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
* * *
90765885 TTAGCGACGTTTTTTATAAAAGCGCCGCTAAAGGTCTTAGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
* *
90765928 TTAGCGGTGTTTTTTCTAAAA
1 TTAGCGGCGTTTTTTATAAAA
90765949 AATGCCGCTA
Statistics
Matches: 158, Mismatches: 35, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 158 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
Found at i:90765931 original size:86 final size:86
Alignment explanation
Indices: 90765713--90765948 Score: 305
Period size: 86 Copynumber: 2.7 Consensus size: 86
90765703 ACTGGGCAAA
* * * *
90765713 TTAGCGACGTTTTTTAAAAAAACCCCGCTAAAAGTACAGGTCTCTAACGGCGTTTTTTATAAAAG
1 TTAGCGACGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTTTAGCGGCGTTTTTTATAAAAG
*
90765778 CGCCGCTAAAGGTCCTGATCT
66 CGCCACTAAAGGTCCTGATCT
* * * * *
90765799 CTAGCGGCGTTTTTTAAAAAAGTGCCGCTAAAAGTACAGGTATTTAGCGGCGTTTTTTATAAGAG
1 TTAGCGACGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTTTAGCGGCGTTTTTTATAAAAG
*
90765864 CGCCACTAAAGGTCCTGGTCT
66 CGCCACTAAAGGTCCTGATCT
* * * *
90765885 TTAGCGACGTTTTTTATAAAAGCGCCGCTAAAGGT-CTTA-GTCTTTAGCGGTGTTTTTTCTAAA
1 TTAGCGACGTTTTTTAAAAAAGCGCCGCTAAAAGTAC--AGGTCTTTAGCGGCGTTTTTTATAAA
90765948 A
64 A
90765949 AATGCCGCTA
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
85 1 0.01
86 126 0.98
87 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (86 bp):
TTAGCGACGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTTTAGCGGCGTTTTTTATAAAAG
CGCCACTAAAGGTCCTGATCT
Found at i:90769261 original size:46 final size:46
Alignment explanation
Indices: 90769137--90769263 Score: 152
Period size: 46 Copynumber: 2.7 Consensus size: 46
90769127 AGAGCTAGTC
* * *
90769137 CAGTGTAAGATCATGTCTAGGACATGGCATTGGCATTGAGATGAGTA
1 CAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATCGAGATGAGTA
*
90769184 CTAGTGTAAGACATGTCTGGGACAT-GCATCGGC-TACGAGATGTGT-
1 C-AGTGTAAGACATGTCTGGGACATGGCATCGGCAT-CGAGATGAGTA
*
90769229 CAGTGTAAAACCATGTCTGGGACATGGCATCGGCA
1 CAGTGTAAGA-CATGTCTGGGACATGGCATCGGCA
90769264 CAGATATGGT
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
44 8 0.11
45 16 0.23
46 23 0.33
47 14 0.20
48 9 0.13
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (46 bp):
CAGTGTAAGACATGTCTGGGACATGGCATCGGCATCGAGATGAGTA
Found at i:90771896 original size:24 final size:24
Alignment explanation
Indices: 90771851--90771898 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
90771841 TTTTATTTTC
90771851 TTTTCTTTTTAATTTTTACTGTTTA
1 TTTTCTTTTT-ATTTTTACTGTTTA
*
90771876 TTTTCTTTTT-TTTTCTTCTGTTT
1 TTTTCTTTTTATTTT-TACTGTTT
90771899 TCCTTTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 7 0.33
25 10 0.48
ACGTcount: A:0.08, C:0.10, G:0.04, T:0.77
Consensus pattern (24 bp):
TTTTCTTTTTATTTTTACTGTTTA
Found at i:90772812 original size:26 final size:23
Alignment explanation
Indices: 90772749--90772817 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 23
90772739 AAAACCACAC
90772749 AGTAAGCTCTGACGAGCTGAAAAT
1 AGTAAGCTCT-ACGAGCTGAAAAT
*
90772773 AGTAAGCTCTTACGAGCTGATATAT
1 AGTAAGCTC-TACGAGCTGA-AAAT
*
90772798 CGGTAAGCTCATACGAGCTG
1 -AGTAAGCTC-TACGAGCTG
90772818 TGATGAGTCC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
24 18 0.46
25 4 0.10
26 17 0.44
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (23 bp):
AGTAAGCTCTACGAGCTGAAAAT
Found at i:90775754 original size:22 final size:22
Alignment explanation
Indices: 90775720--90775789 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 22
90775710 ATAGGGGTAA
* *
90775720 GATATGCTATGATATGAAATAT
1 GATACGCTCTGATATGAAATAT
* **
90775742 GATACGTTCTGATGCGAAATAT
1 GATACGCTCTGATATGAAATAT
* * * *
90775764 AATATGCTCTAATATGAGATAT
1 GATACGCTCTGATATGAAATAT
90775786 GATA
1 GATA
90775790 AGCTTCAATA
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.34
Consensus pattern (22 bp):
GATACGCTCTGATATGAAATAT
Found at i:90776703 original size:22 final size:23
Alignment explanation
Indices: 90776668--90776719 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
90776658 ATGTAAGCTT
*
90776668 TGTTTGTACAAAATTATGTGTTA
1 TGTTTATACAAAATTATGTGTTA
90776691 TGTTTATA-AAAATTATGTGTTA
1 TGTTTATACAAAATTATGTGTTA
90776713 TGTTTAT
1 TGTTTAT
90776720 GATCCGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 21 0.75
23 7 0.25
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.52
Consensus pattern (23 bp):
TGTTTATACAAAATTATGTGTTA
Found at i:90779070 original size:22 final size:22
Alignment explanation
Indices: 90779017--90779076 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
90779007 ATGGGGGTAG
* *
90779017 GATATGCTATGATATAAAATAC
1 GATATGCTTTGATATGAAATAC
*
90779039 GATATGCTTTGATATGAGATAC
1 GATATGCTTTGATATGAAATAC
90779061 GATAAT-CTTTGATATG
1 GAT-ATGCTTTGATATG
90779077 TTATATGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 32 0.94
23 2 0.06
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (22 bp):
GATATGCTTTGATATGAAATAC
Found at i:90779938 original size:10 final size:11
Alignment explanation
Indices: 90779913--90779939 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
90779903 CCCTGCATAT
90779913 TTTTTGAAAAG
1 TTTTTGAAAAG
90779924 TTTTTGAAAAG
1 TTTTTGAAAAG
90779935 TTTTT
1 TTTTT
90779940 TCTGCCTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (11 bp):
TTTTTGAAAAG
Found at i:90780744 original size:25 final size:25
Alignment explanation
Indices: 90780716--90780771 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
90780706 AAGAGTCACC
90780716 TCATTCCCTATACTCAAACCATCTA
1 TCATTCCCTATACTCAAACCATCTA
90780741 TCATTCCCTATACTCAAACCATCTA
1 TCATTCCCTATACTCAAACCATCTA
90780766 TCATTC
1 TCATTC
90780772 TACCAAGAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.34
Consensus pattern (25 bp):
TCATTCCCTATACTCAAACCATCTA
Found at i:90782659 original size:12 final size:12
Alignment explanation
Indices: 90782642--90782666 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90782632 TGAATCTTGG
90782642 TGGAAAATTGCT
1 TGGAAAATTGCT
90782654 TGGAAAATTGCT
1 TGGAAAATTGCT
90782666 T
1 T
90782667 CAATGGTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (12 bp):
TGGAAAATTGCT
Found at i:90787103 original size:28 final size:28
Alignment explanation
Indices: 90787067--90787131 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
90787057 ATTTACTAGA
* *
90787067 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTACGCAAAATGACCATT
* * *
90787095 ATACTCCTATGTACGCTAAATGACCTTT
1 ATACCCCTATGTACGCAAAATGACCATT
90787123 ATACCCCTA
1 ATACCCCTA
90787132 GGGTTAATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTACGCAAAATGACCATT
Found at i:90787278 original size:28 final size:29
Alignment explanation
Indices: 90787237--90787299 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
90787227 AGGAAGCGTC
*
90787237 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
90787265 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
90787294 CTGGTG
1 CTGGTG
90787300 ACTCTATCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:90787310 original size:29 final size:28
Alignment explanation
Indices: 90787249--90787310 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
90787239 GGTGGCTATG
* * *
90787249 CCACAAATTATCTGTTCTGGTGGCACTG
1 CCACAAAATATCTGTTCTGGTGACACTA
*
90787277 CCACAAAATATCTGTATCTGGTGACTCTA
1 CCACAAAATATCTGT-TCTGGTGACACTA
*
90787306 TCACA
1 CCACA
90787311 TTTTCTGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (28 bp):
CCACAAAATATCTGTTCTGGTGACACTA
Found at i:90787786 original size:19 final size:19
Alignment explanation
Indices: 90787762--90787800 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
90787752 TTTTAATTAT
* *
90787762 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
90787781 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
90787800 T
1 T
90787801 ATGACGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:90794917 original size:28 final size:28
Alignment explanation
Indices: 90794885--90794949 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
90794875 ATTTACTAGA
*
90794885 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
90794913 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
90794941 ATACCCCTA
1 ATACCCCTA
90794950 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:90795096 original size:28 final size:29
Alignment explanation
Indices: 90795055--90795117 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
90795045 AGGAAGCGTC
*
90795055 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
90795083 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
90795112 CTGGTG
1 CTGGTG
90795118 ACTCTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:90795128 original size:29 final size:28
Alignment explanation
Indices: 90795065--90795128 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
90795055 CTGGTGGCTA
* *
90795065 TGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
90795093 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
90795122 TGTCACA
1 TGCCACA
90795129 TTTTCTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:90795605 original size:19 final size:19
Alignment explanation
Indices: 90795581--90795619 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
90795571 TTTTAATTAT
* *
90795581 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
90795600 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
90795619 T
1 T
90795620 ATGACGGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:90802425 original size:17 final size:17
Alignment explanation
Indices: 90802394--90802426 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
90802384 CTAATATATG
*
90802394 TATATATTGTATATTTA
1 TATATATTATATATTTA
90802411 TATATATTATATATTT
1 TATATATTATATATTT
90802427 TTAATGTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATATATTATATATTTA
Found at i:90802755 original size:3 final size:3
Alignment explanation
Indices: 90802741--90802823 Score: 59
Period size: 3 Copynumber: 28.3 Consensus size: 3
90802731 GTATTTTTAC
* *
90802741 TAT TAT TGT TAT TAT TAT TAT TAT T-T TAT T-T TAT TTT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
90802786 TTT GTAT ATAT TAT TCA- TAC TAT CAT TAT TA- TAT TAT T
1 TAT -TAT -TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT T
90802824 TTTACGACTG
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
2 9 0.14
3 49 0.77
4 6 0.09
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:90802797 original size:22 final size:22
Alignment explanation
Indices: 90802750--90802823 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
90802740 CTATTATTGT
*
90802750 TATTATTATTATTATTTTATTT
1 TATTATTATTATTATTTTATTA
* *
90802772 TATTTTTATTATT-TTTTGTATA
1 TATTATTATTATTATTTTAT-TA
* *
90802794 TATTATTCA-TACTATCATTATTA
1 TATTATT-ATTATTAT-TTTATTA
90802817 TATTATT
1 TATTATT
90802824 TTTACGACTG
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
21 5 0.12
22 22 0.54
23 11 0.27
24 3 0.07
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (22 bp):
TATTATTATTATTATTTTATTA
Found at i:90802799 original size:19 final size:19
Alignment explanation
Indices: 90802741--90802800 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
90802731 GTATTTTTAC
90802741 TATTATTGTTA-T-TATTAT
1 TATTATT-TTATTGTATTAT
* *
90802759 TATTATTTTATTTTATTTT
1 TATTATTTTATTGTATTAT
90802778 TATTATTTT-TTGTATATAT
1 TATTATTTTATTGTAT-TAT
90802797 TATT
1 TATT
90802801 CATACTATCA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 3 0.08
18 13 0.36
19 20 0.56
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TATTATTTTATTGTATTAT
Found at i:90803016 original size:27 final size:27
Alignment explanation
Indices: 90802965--90803029 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
90802955 ATATTTACCC
*
90802965 TTTTTACTATTATTATCTATCATTT-T
1 TTTTTAATATTATTATCTATCATTTGT
90802991 ATTTTTAATATTATTAAGT-TAT-ATTTGT
1 -TTTTTAATATTATT-A-TCTATCATTTGT
*
90803019 TTTTTTATATT
1 TTTTTAATATT
90803030 CTTTTATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 27 0.82
28 5 0.15
29 1 0.03
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (27 bp):
TTTTTAATATTATTATCTATCATTTGT
Found at i:90803072 original size:12 final size:12
Alignment explanation
Indices: 90803057--90803081 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90803047 ACCATTATTA
90803057 ACATATATATAT
1 ACATATATATAT
90803069 ACATATATATAT
1 ACATATATATAT
90803081 A
1 A
90803082 TTTTTATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ACATATATATAT
Found at i:90815333 original size:75 final size:75
Alignment explanation
Indices: 90815240--90815378 Score: 224
Period size: 75 Copynumber: 1.9 Consensus size: 75
90815230 TTCTGTTTTC
* * *
90815240 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTTAAGACACGTTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTT
90815305 GGTCTTTCAA
66 GGTCTTTCAA
** *
90815315 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
90815379 CTATTTTTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 58 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTT
GGTCTTTCAA
Found at i:90815404 original size:14 final size:15
Alignment explanation
Indices: 90815369--90815401 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
90815359 CGCTGAGGTA
*
90815369 TTTTCAATTTCTATT
1 TTTTCAATTTATATT
90815384 TTTTCAATTTATATT
1 TTTTCAATTTATATT
90815399 TTT
1 TTT
90815402 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTCAATTTATATT
Found at i:90815465 original size:90 final size:88
Alignment explanation
Indices: 90815315--90815531 Score: 223
Period size: 88 Copynumber: 2.5 Consensus size: 88
90815305 GGTCTTTCAA
* *
90815315 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGCTATTTTCAA-TTC
90815380 -TATTTTTTCAATTTATATTTTTC
65 ATATTTTTTCAATTTATATTTTTC
* * * *
90815403 AAAAATCAACTCATATTGTGAAAGGTGAGTTGAGTCT-TGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGG-ACAC--GCTGAGCTATTTTCAAT
* * *
90815467 TCATA-TTTTT-AATGTCTGTTTTT-
63 TCATATTTTTTCAATTTATATTTTTC
* * *
90815490 AAAGATTCAATTCATATTGCGAGAA-ATGAGTTGAG-CTCAGGA
1 AAA-AATCAACTCATATTGCGA-AAGGTGAGTTGAGCCTCAGGA
90815532 TCATATACTG
Statistics
Matches: 107, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
87 7 0.07
88 73 0.68
89 10 0.09
90 17 0.16
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.37
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGCTATTTTCAATTCA
TATTTTTTCAATTTATATTTTTC
Found at i:90820858 original size:19 final size:19
Alignment explanation
Indices: 90820836--90820882 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
90820826 TAAAAGTGCC
*
90820836 AAATTTTATATTTTTTAAA
1 AAATTTTATATTTTTAAAA
*
90820855 AAATTATAATATTTTTAAAA
1 AAATT-TTATATTTTTAAAA
90820875 AAATTTTA
1 AAATTTTA
90820883 GAGAATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATTTTATATTTTTAAAA
Found at i:90822060 original size:4 final size:4
Alignment explanation
Indices: 90822045--90822074 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
90822035 CACATCGAAA
*
90822045 CACT CGCT CACT CACT CACT CACT CACT CA
1 CACT CACT CACT CACT CACT CACT CACT CA
90822075 TCCATTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.50, G:0.03, T:0.23
Consensus pattern (4 bp):
CACT
Found at i:90823918 original size:30 final size:30
Alignment explanation
Indices: 90823872--90823995 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
90823862 TTTTATTATG
*
90823872 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
90823903 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
90823933 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
90823963 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
90823993 CCA
1 CCA
90823996 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:90823927 original size:15 final size:15
Alignment explanation
Indices: 90823882--90823989 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
90823872 CCAATATCTC
90823882 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
90823897 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
90823912 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
90823927 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
90823942 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
90823957 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
90823972 GATACCCATATCTTT
1 GATACCCATATCTTT
90823987 GAT
1 GAT
90823990 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:90828613 original size:30 final size:30
Alignment explanation
Indices: 90828563--90828686 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
90828553 TTTTATTATG
*
90828563 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
90828594 CCAATATTTGATACACATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
90828624 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
90828654 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
90828684 CCA
1 CCA
90828687 TAAATATGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 79 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:90834856 original size:3 final size:3
Alignment explanation
Indices: 90834848--90834948 Score: 89
Period size: 3 Copynumber: 33.0 Consensus size: 3
90834838 CAACCAACAA
** * *
90834848 AAT AAT AAT AA- AGG AAT AAT AAT CAT AAT TAT AAT AAT AAT AAT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * *
90834896 AAT AAT AA- ATAT AAT GAAT AAT AAC AGT AAT AAT AAT AAT GAAG AAT
1 AAT AAT AAT A-AT AAT -AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
90834943 AAT AAT
1 AAT AAT
90834949 TAAAAATAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
2 2 0.03
3 68 0.86
4 9 0.11
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:90834948 original size:38 final size:37
Alignment explanation
Indices: 90834848--90834957 Score: 94
Period size: 41 Copynumber: 2.8 Consensus size: 37
90834838 CAACCAACAA
* * *
90834848 AATAATAATAAAGGAATAATAATCATAATTATAATAAT
1 AATAATAATAAA-GAATAATAATAATAATAACAATAAT
* * *
90834886 AATAATAATTAATAATAAATATAATGAATAATAACAGTAAT
1 AATAATAATAAAGAAT--A-ATAAT-AATAATAACAATAAT
* *
90834927 AATAATAATGAAGAATAATAATTAAAAATAA
1 AATAATAATAAAGAATAATAA-TAATAATAA
90834958 ATAAATAAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
37 3 0.05
38 22 0.38
39 3 0.05
40 5 0.09
41 25 0.43
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (37 bp):
AATAATAATAAAGAATAATAATAATAATAACAATAAT
Found at i:90839562 original size:389 final size:388
Alignment explanation
Indices: 90838824--90839589 Score: 1110
Period size: 389 Copynumber: 2.0 Consensus size: 388
90838814 ATGGTCACTA
* * * *
90838824 AACTAACTAAAAATTTGACTGAGGCAAGATCACCTATTGAACAGTAGTATAGTTATGGTTAGACC
1 AACTAACTAAAAATTCGACTAAGGCAAGATCACCTATCGAACAGTAGTATAGTTATGGTGAGACC
*
90838889 GGAAATATCGTATCCACAAGGACTAAAAGTACTAGTAATTACTATCTTTTTATTATCTAGCCTAA
66 GAAAATATCGTATCCACAAGGACTAAAAGTACTAGTAATTACTATCTTTTTATTATCTAGCCTAA
* * *
90838954 CAATTAAGAGAATGTTTTAAACTAAGACAAATTATCTAATTAACTAAAATTACGACAGATATTAA
131 CAATTAAGAGAATGTTTTAAACTAAAACAAATTATCTAATTAACTAAAATTACGACAAAGATTAA
** *
90839019 AGTTGGAAAATACTTTTTAGAAAACCGATGGAAAGGACAATACCCAAGGAAGAATCCACCTAGAC
196 AGTTGGAAAATACTTTGGAGAAAACCGATGGAAAGGACAATACCCAAGGAACAATCCACCTAGAC
* * * ** * *
90839084 TTTACTTATCACTTCTGAATTAGACGATTTATTCACTTGACTTAATCTGTATAAATCCCTGATTT
261 TTCACTTATCACTTCTGAATTAGACAATTTATTCACTTAACTTAATCCATAGAAATCCCTAATTT
90839149 ATGTTAATATCTCTCTCAAGACTAAAAACAACTGACTCTAGGTTGATTAATTGATGATCATGT
326 ATGTTAATATCTCTCTCAAGACTAAAAACAACTGACTCTAGGTTGATTAATTGATGATCATGT
90839212 AACTAACTAAAAATTCGACTTAAGGCAAGCA-CACCTATCGAACAGTAGTATAGTTATGGTGAGA
1 AACTAACTAAAAATTCGAC-TAAGGCAAG-ATCACCTATCGAACAGTAGTATAGTTATGGTGAGA
** *
90839276 CCGAAAATATCGTATCCATGAGGAGTAAAAGTACTAGTAATTACTATCTTTTTATTATCTAGCCT
64 CCGAAAATATCGTATCCACAAGGACTAAAAGTACTAGTAATTACTATCTTTTTATTATCTAGCCT
* ** * * * *
90839341 AAGAATTAAG-GTGTGTTTTTAAACTAAAACTATTTATCTAATTGACTAAGATTACGACAAAGA-
129 AACAATTAAGAGAATG-TTTTAAACTAAAACAAATTATCTAATTAACTAAAATTACGACAAAGAT
* *
90839404 TGAAGTTTGGAAAATACTTTGG-GAAAAACTGATGGAGAA-GACAATACCCAAGGAACAATCCAC
193 TAAAG-TTGGAAAATACTTTGGAG-AAAACCGATGGA-AAGGACAATACCCAAGGAACAATCCAC
* *
90839467 CTAGACTTCACTTATTACTTCTGAATTAGACAATTTCTTCACTTAACTTAATCCATAGAAATCCC
255 CTAGACTTCACTTATCACTTCTGAATTAGACAATTTATTCACTTAACTTAATCCATAGAAATCCC
* * * * *
90839532 TAATTTATGTTAATATCTCTCTCGAGACTAAGAATAACTGACTTTTGGTTGATTAATT
320 TAATTTATGTTAATATCTCTCTCAAGACTAAAAACAACTGACTCTAGGTTGATTAATT
90839590 AAAATCTCTT
Statistics
Matches: 335, Mismatches: 37, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
388 26 0.08
389 306 0.91
390 3 0.01
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (388 bp):
AACTAACTAAAAATTCGACTAAGGCAAGATCACCTATCGAACAGTAGTATAGTTATGGTGAGACC
GAAAATATCGTATCCACAAGGACTAAAAGTACTAGTAATTACTATCTTTTTATTATCTAGCCTAA
CAATTAAGAGAATGTTTTAAACTAAAACAAATTATCTAATTAACTAAAATTACGACAAAGATTAA
AGTTGGAAAATACTTTGGAGAAAACCGATGGAAAGGACAATACCCAAGGAACAATCCACCTAGAC
TTCACTTATCACTTCTGAATTAGACAATTTATTCACTTAACTTAATCCATAGAAATCCCTAATTT
ATGTTAATATCTCTCTCAAGACTAAAAACAACTGACTCTAGGTTGATTAATTGATGATCATGT
Found at i:90843948 original size:11 final size:11
Alignment explanation
Indices: 90843932--90843978 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
90843922 TTATTTACAA
90843932 AATCATATATT
1 AATCATATATT
90843943 AATCATATATT
1 AATCATATATT
** *
90843954 -ATTTTAAATTT
1 AATCATATA-TT
90843965 AATCATATATT
1 AATCATATATT
90843976 AAT
1 AAT
90843979 TCTGAAATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
10 5 0.18
11 18 0.64
12 5 0.18
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (11 bp):
AATCATATATT
Found at i:90848741 original size:32 final size:31
Alignment explanation
Indices: 90848676--90848748 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
90848666 TGCATATACG
* * * *
90848676 TTATATATATAATAAGAACCACACATATATA
1 TTATATATAAAAAAAAAACCACACACATATA
*
90848707 TTATATATAAAAAAAAAACCCACACACATGTA
1 TTATATATAAAAAAAAAA-CCACACACATATA
*
90848739 TTAAATATAA
1 TTATATATAA
90848749 TACAACCTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
31 15 0.43
32 20 0.57
ACGTcount: A:0.55, C:0.14, G:0.03, T:0.29
Consensus pattern (31 bp):
TTATATATAAAAAAAAAACCACACACATATA
Found at i:90851204 original size:31 final size:32
Alignment explanation
Indices: 90851166--90851240 Score: 107
Period size: 31 Copynumber: 2.3 Consensus size: 32
90851156 CATTAAATCT
*
90851166 AACCAAAAACAGCAAATATAGCAT-AAAATGC
1 AACCAAAAACAGCAAATATAGCATAAAAATAC
* *
90851197 AACCAAAAACAGCAAATTTCGCATAAAAAATAC
1 AACCAAAAACAGCAAATATAGCAT-AAAAATAC
90851230 AACCAAAAACA
1 AACCAAAAACA
90851241 TTAATTCTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
31 22 0.56
33 17 0.44
ACGTcount: A:0.60, C:0.21, G:0.07, T:0.12
Consensus pattern (32 bp):
AACCAAAAACAGCAAATATAGCATAAAAATAC
Found at i:90851962 original size:13 final size:14
Alignment explanation
Indices: 90851936--90851964 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
90851926 ACTAATGACG
90851936 AATTAAACCATTAT
1 AATTAAACCATTAT
90851950 AATTAAA-CATTAT
1 AATTAAACCATTAT
90851963 AA
1 AA
90851965 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:90857029 original size:9 final size:9
Alignment explanation
Indices: 90857017--90857113 Score: 65
Period size: 9 Copynumber: 11.0 Consensus size: 9
90857007 ATAAGTAAAT
90857017 TAAGTTATG
1 TAAGTTATG
90857026 TAAGTTATG
1 TAAGTTATG
* * *
90857035 ATATGATATA
1 -TAAGTTATG
*
90857045 T-ATTTATG
1 TAAGTTATG
90857053 T-A-TTATG
1 TAAGTTATG
90857060 TAAGTTATG
1 TAAGTTATG
*
90857069 TAAATTATG
1 TAAGTTATG
* *
90857078 TAAGTTGTT
1 TAAGTTATG
**
90857087 TATCTTATG
1 TAAGTTATG
*
90857096 TAAATTATG
1 TAAGTTATG
*
90857105 TAAGATATG
1 TAAGTTATG
90857114 ATATATATTT
Statistics
Matches: 66, Mismatches: 19, Indels: 6
0.73 0.21 0.07
Matches are distributed among these distances:
7 6 0.09
8 6 0.09
9 48 0.73
10 6 0.09
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:90857095 original size:43 final size:42
Alignment explanation
Indices: 90856992--90857113 Score: 113
Period size: 43 Copynumber: 2.8 Consensus size: 42
90856982 ATTTACACGG
* *
90856992 GTAAGTTGTTTATTTATAAGTA-AAT-TAAGTTATGTAAGTTAT
1 GTAAGTTGTTTATTTAT--GTATTATGTAAGTTATGTAAATTAT
* * * *
90857034 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTAT
1 G-TAAGTTGTTTATTTATGTATTATGTAAGTTATGTAAATTAT
*
90857077 GTAAGTTGTTTATCTTATGTAAATTATGTAAGATATG
1 GTAAGTTGTTTAT-TTATGT--ATTATGTAAGTTATG
90857114 ATATATATTT
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
41 3 0.05
42 11 0.17
43 35 0.56
45 14 0.22
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.48
Consensus pattern (42 bp):
GTAAGTTGTTTATTTATGTATTATGTAAGTTATGTAAATTAT
Found at i:90857409 original size:5 final size:5
Alignment explanation
Indices: 90857399--90857423 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
90857389 TTTTCATGAT
90857399 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
90857424 CATTAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:90857607 original size:104 final size:105
Alignment explanation
Indices: 90857399--90858161 Score: 871
Period size: 104 Copynumber: 7.7 Consensus size: 105
90857389 TTTTCATGAT
** *
90857399 TAAAATAAAATAAAATAAAATAAAACATTAAATACAATTTAATTTAATTAGGTAATTTAAAAATA
1 TAAAATAAAAT-ATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATA
90857464 AAATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAA
65 AAATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAA
*
90857505 TAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTCATTT-AAAATAA
1 TAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAA
*
90857569 AATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAA
66 AATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAA
* * *
90857609 TAAAATAAAACATTTAAAATAAAAATTTAAATAAAATTTAATTTAATTAGGTAATTTAAAAATAA
1 TAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAA
90857674 AATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAA
66 AATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAA
90857714 TAAAAT---A-A---AAAAT-----TTTAAATACAATTTAATTTAATTAGGTAATTT-AAAATAA
1 TAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAA
* *
90857766 AAGAAAAGTATACAAAATATTTTTCATGATTAAAATAAAA
66 AATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAA
*
90857806 TAAAATAAAATATTTAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTT-AAAATAA
1 TAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAA
* *
90857870 AATAAAAGTATACAAAATATTTTTCGTGATTAAAATAAAA
66 AATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAA
* * * * ** * *
90857910 TAAAATAAAAT-TTT-AAATACAA-TTTCATTA-GA--TAATTTAA--AAATAA-ATAAAAGT-A
1 TAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAA
* * **** * ** * *
90857965 GACAAAA-T--A-TTTTTCGTGATT-A-AAATAAAATAAAA
66 AATAAAAGTAGACAAAAT-ATTTTTCATGATTAAAATAAAA
*
90858000 T-AAA----ATATTTAAAATAAAAATTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAA
1 TAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAA
*
90858060 AATAAAAGTAGACAAAATATTTTTCGTGA-T----TAAAA
66 AATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAA
*
90858095 T---A-AAAA-ATTTAAAATAAAACTTTAAATACAATTGAATTTAATTAGGTAATTTAAAAATAA
1 TAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAA
90858155 AATAAAA
66 AATAAAA
90858162 TATTTAAAAT
Statistics
Matches: 567, Mismatches: 56, Indels: 79
0.81 0.08 0.11
Matches are distributed among these distances:
85 2 0.00
86 3 0.01
87 7 0.01
88 6 0.01
89 4 0.01
90 12 0.02
91 9 0.02
92 55 0.10
93 36 0.06
94 7 0.01
95 79 0.14
96 11 0.02
98 17 0.03
99 7 0.01
100 2 0.00
101 7 0.01
102 8 0.01
103 3 0.01
104 187 0.33
105 94 0.17
106 11 0.02
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (105 bp):
TAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAA
AATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAA
Found at i:90857628 original size:14 final size:13
Alignment explanation
Indices: 90857598--90857649 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 13
90857588 TTTTTCGTGA
90857598 TTAAAAT-AAAA-
1 TTAAAATAAAAAT
90857609 -TAAAATAAAACAT
1 TTAAAATAAAA-AT
90857622 TTAAAATAAAAAT
1 TTAAAATAAAAAT
90857635 TT-AAAT-AAAAT
1 TTAAAATAAAAAT
90857646 TTAA
1 TTAA
90857650 TTTAATTAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
10 6 0.17
11 10 0.28
12 6 0.17
13 4 0.11
14 10 0.28
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAAATAAAAAT
Found at i:90857714 original size:43 final size:43
Alignment explanation
Indices: 90857667--90857815 Score: 129
Period size: 43 Copynumber: 3.3 Consensus size: 43
90857657 AGGTAATTTA
*
90857667 AAAATAAAATAAAAGTAGACAAAATATTTTTCATGATTAAAAT
1 AAAATAAAATAAAAGTAAACAAAATATTTTTCATGATTAAAAT
* * * * * * **
90857710 AAAATAAAATAAAAAATTTTAAATACAAT-TTAATTTAATTAGGTAATTT
1 AAAATAAAAT--AAAA--GTAAACAAAATATT--TTTCATGA-TTAAAAT
* *
90857759 AAAATAAAAGAAAAGTATACAAAATATTTTTCATGATTAAAAT
1 AAAATAAAATAAAAGTAAACAAAATATTTTTCATGATTAAAAT
90857802 AAAATAAAATAAAA
1 AAAATAAAATAAAA
90857816 TATTTAAAAT
Statistics
Matches: 78, Mismatches: 20, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
43 27 0.35
44 6 0.08
45 11 0.14
46 4 0.05
47 11 0.14
48 6 0.08
49 13 0.17
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (43 bp):
AAAATAAAATAAAAGTAAACAAAATATTTTTCATGATTAAAAT
Found at i:90857838 original size:12 final size:13
Alignment explanation
Indices: 90857795--90857836 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
90857785 TTTTTCATGA
90857795 TTAAAATAAAA--
1 TTAAAATAAAATT
90857806 -TAAAATAAAATAT
1 TTAAAATAAAAT-T
90857819 TTAAAATAAAATT
1 TTAAAATAAAATT
90857832 TTAAA
1 TTAAA
90857837 TACAATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.37
13 6 0.22
14 11 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TTAAAATAAAATT
Found at i:90857843 original size:12 final size:12
Alignment explanation
Indices: 90857795--90857846 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
90857785 TTTTTCATGA
90857795 TTAAAATAAAA-
1 TTAAAATAAAAT
90857806 -TAAAATAAAATAT
1 TTAAAAT-AAA-AT
90857819 TTAAAATAAAAT
1 TTAAAATAAAAT
* *
90857831 TTTAAATACAAT
1 TTAAAATAAAAT
90857843 TTAA
1 TTAA
90857847 TTTAATTAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 6 0.18
11 3 0.09
12 16 0.47
13 3 0.09
14 6 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (12 bp):
TTAAAATAAAAT
Found at i:90857865 original size:301 final size:289
Alignment explanation
Indices: 90857330--90858161 Score: 1151
Period size: 301 Copynumber: 2.8 Consensus size: 289
90857320 CAATATTTAA
90857330 AAATACAATTTAATTTAATATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCA
1 AAATA-AATTTAATTT-A-ATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCA
**
90857395 TGATTAAAATAAAATAAAATAAAATAAAACATTAAATACAATTTAATTTAATTAGGTAATTTAAA
63 TGATTAAAATAAAATAAAAT-AAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAA
90857460 AATAAAATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAATAAAATAAAATATTTAAAAT
127 AATAAAATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAATAAAATAAAATATTTAAAAT
*
90857525 AAAACTTTAAATACAATTTAATTTAATTAGGTCATTTAAAATAAAATAAAAGTAGACAAAATATT
192 AAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAATAAAATAAAAGTAGACAAAATATT
90857590 TTTCGTGATTAAAATAAAATAAAATAAAACATTTAAAATAAAAATTT
257 TTTCGTGA-T----TAAAATAAAAT-AAA-A--TAAAAT-----TTT
90857637 AAATAAAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCATG
1 AAAT-AAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCATG
90857702 ATTAAAATAAAATAAAAT-AA-AAAATTTTAAATACAATTTAATTTAATTAGGTAATTT-AAAAT
65 ATTAAAATAAAATAAAATAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAAT
* *
90857764 AAAAGAAAAGTATACAAAATATTTTTCATGATTAAAATAAAATAAAATAAAATATTTAAAATAAA
130 AAAATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAATAAAATAAAATATTTAAAATAAA
* *
90857829 ATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAATAAAATAAAAGTATACAAAATATTTTT
195 ACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAATAAAATAAAAGTAGACAAAATATTTTT
90857894 CGTGATTAAAATAAAATAAAATAAAATTTT
260 CGTGATTAAAATAAAATAAAATAAAATTTT
* * * *
90857924 AAAT--A--CAATTTCATTAGATAATTTAAAAAT-AAATAAAAGTAGACAAAATATTTTTCGTGA
1 AAATAAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCATGA
90857984 TTAAAATAAAATAAAATAAAATATTTAAAATAAAAATTTAAATACAATTTAATTTAATTAGGTAA
66 TTAAAATAAAATAAAAT--AA-A--TAAAAT-----TTTAAATACAATTTAATTTAATTAGGTAA
*
90858049 TTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGA-T----TAAAAT---A-AAAA-ATT
121 TTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAATAAAATAAAATATT
*
90858104 TAAAATAAAACTTTAAATACAATTGAATTTAATTAGGTAATTTAAAAATAAAATAAAA
186 TAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTT-AAAATAAAATAAAA
90858162 TATTTAAAAT
Statistics
Matches: 494, Mismatches: 16, Indels: 52
0.88 0.03 0.09
Matches are distributed among these distances:
281 46 0.09
282 22 0.04
284 46 0.09
285 19 0.04
286 1 0.00
287 7 0.01
288 5 0.01
289 6 0.01
292 6 0.01
293 33 0.07
294 34 0.07
295 3 0.01
296 11 0.02
300 1 0.00
301 135 0.27
302 35 0.07
303 2 0.00
305 66 0.13
306 1 0.00
307 14 0.03
308 1 0.00
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (289 bp):
AAATAAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCATGA
TTAAAATAAAATAAAATAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATA
AAATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAATAAAATAAAATATTTAAAATAAAA
CTTTAAATACAATTTAATTTAATTAGGTAATTTAAAATAAAATAAAAGTAGACAAAATATTTTTC
GTGATTAAAATAAAATAAAATAAAATTTT
Found at i:90857909 original size:43 final size:43
Alignment explanation
Indices: 90857862--90858004 Score: 150
Period size: 43 Copynumber: 3.3 Consensus size: 43
90857852 TTAGGTAATT
90857862 TAAAATAAAATAAAAGTATACAAAATATTTTTCGTGATTAAAA
1 TAAAATAAAATAAAAGTATACAAAATATTTTTCGTGATTAAAA
* * * * * * **
90857905 TAAAATAAAATAAAATTTTA-AATACA-ATTTCATTAGA-TAATT
1 TAAAATAAAATAAAAGTATACAAAATATTTTTC-GT-GATTAAAA
*
90857947 TAAAA-ATAAATAAAAGTAGACAAAATATTTTTCGTGATTAAAA
1 TAAAATA-AAATAAAAGTATACAAAATATTTTTCGTGATTAAAA
90857990 TAAAATAAAATAAAA
1 TAAAATAAAATAAAA
90858005 TATTTAAAAT
Statistics
Matches: 76, Mismatches: 17, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
41 5 0.07
42 25 0.33
43 41 0.54
44 5 0.07
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (43 bp):
TAAAATAAAATAAAAGTATACAAAATATTTTTCGTGATTAAAA
Found at i:90857912 original size:38 final size:37
Alignment explanation
Indices: 90857861--90857999 Score: 111
Period size: 38 Copynumber: 3.4 Consensus size: 37
90857851 ATTAGGTAAT
90857861 TTAAAATAAAATAAAAGTATACAAAATATTTTTCGTGA
1 TTAAAATAAAATAAAAGTA-ACAAAATATTTTTCGTGA
* * *
90857899 TTAAAATAAAATAAAA-TAAAATTTTAAATACAATTTCATTAGATAA
1 TTAAAATAAAATAAAAGTAACA----AAAT---ATTT--TTCG-TGA
90857945 TTTAAAA-ATAAATAAAAGTAGACAAAATATTTTTCGTGA
1 -TTAAAATA-AAATAAAAGTA-ACAAAATATTTTTCGTGA
90857984 TTAAAATAAAATAAAA
1 TTAAAATAAAATAAAA
90858000 TAAAATATTT
Statistics
Matches: 80, Mismatches: 6, Indels: 30
0.69 0.05 0.26
Matches are distributed among these distances:
36 2 0.03
37 2 0.03
38 30 0.38
39 3 0.04
40 7 0.09
42 4 0.05
43 4 0.05
45 7 0.09
46 3 0.04
47 14 0.17
48 2 0.03
49 2 0.03
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (37 bp):
TTAAAATAAAATAAAAGTAACAAAATATTTTTCGTGA
Found at i:90857934 original size:85 final size:86
Alignment explanation
Indices: 90857820--90858161 Score: 294
Period size: 85 Copynumber: 3.6 Consensus size: 86
90857810 ATAAAATATT
* *
90857820 TAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTT-AAAATAAAATAAAAGTATACA
1 TAAAATAAAATTTTAAATAC----TAATTTAATTAGATAATTTAAAAAT-AAATAAAAGTAGACA
90857884 AAATATTTTTCGTGATTAAAATAAAA
61 AAATATTTTTCGTGATTAAAATAAAA
*
90857910 TAAAATAAAATTTTAAATAC-AATTTCATTAGATAATTTAAAAATAAATAAAAGTAGACAAAATA
1 TAAAATAAAATTTTAAATACTAATTTAATTAGATAATTTAAAAATAAATAAAAGTAGACAAAATA
90857974 TTTTTCGTGATTAAAATAAAA
66 TTTTTCGTGATTAAAATAAAA
**
90857995 TAAAATAAAATATTTAAAATAAAAATTTAAATACAATTTA-ATTTAATTAGGTAATTTAAAAATA
1 TAAAATAAAAT-TTT-AAATACTAA-TT---T--AA-TTAGA--TAATT---T-A---AAA-AT-
90858059 AAATAAAAGTAGACAAAATATTTTTCGTGATTAAAATAAAAAA
46 AAATAAAAGTAGACAAAATATTTTTCGTGATTAAAAT--AAAA
* *
90858102 TTTAAAATAAAACTTTAAATACAATTGAATTTAATTAGGTAATTTAAAAATAAAATAAAA
1 --TAAAATAAAATTTTAAATAC---T-AATTTAATTAGATAATTTAAAAAT-AAATAAAA
90858162 TATTTAAAAT
Statistics
Matches: 212, Mismatches: 9, Indels: 57
0.76 0.03 0.21
Matches are distributed among these distances:
85 67 0.32
86 8 0.04
87 5 0.02
88 2 0.01
89 2 0.01
90 20 0.09
92 1 0.00
94 2 0.01
95 14 0.07
96 8 0.04
99 2 0.01
100 2 0.01
103 8 0.04
104 5 0.02
105 39 0.18
107 10 0.05
108 3 0.01
109 10 0.05
110 2 0.01
111 2 0.01
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.35
Consensus pattern (86 bp):
TAAAATAAAATTTTAAATACTAATTTAATTAGATAATTTAAAAATAAATAAAAGTAGACAAAATA
TTTTTCGTGATTAAAATAAAA
Found at i:90858014 original size:14 final size:13
Alignment explanation
Indices: 90857984--90858025 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
90857974 TTTTTCGTGA
90857984 TTAAAAT-AAAA-
1 TTAAAATAAAAAT
90857995 -TAAAATAAAATAT
1 TTAAAATAAAA-AT
90858008 TTAAAATAAAAAT
1 TTAAAATAAAAAT
90858021 TTAAA
1 TTAAA
90858026 TACAATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 6 0.22
11 3 0.11
12 1 0.04
13 7 0.26
14 10 0.37
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAAATAAAAAT
Found at i:90860596 original size:20 final size:20
Alignment explanation
Indices: 90860568--90860606 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
90860558 ATGGGGTTGG
*
90860568 ATGATATAACAAGAAAACTA
1 ATGACATAACAAGAAAACTA
*
90860588 ATGACATAATAAGAAAACT
1 ATGACATAACAAGAAAACT
90860607 GAACCTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.21
Consensus pattern (20 bp):
ATGACATAACAAGAAAACTA
Found at i:90860674 original size:21 final size:21
Alignment explanation
Indices: 90860632--90860670 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
90860622 TATGGTTGCG
90860632 GCAGCAGAGAGCGACGGCGAC
1 GCAGCAGAGAGCGACGGCGAC
*
90860653 GCAGCAGTGAG-GACGGCG
1 GCAGCAGAGAGCGACGGCG
90860671 GACGGCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.26, C:0.26, G:0.46, T:0.03
Consensus pattern (21 bp):
GCAGCAGAGAGCGACGGCGAC
Found at i:90861064 original size:19 final size:19
Alignment explanation
Indices: 90861037--90861081 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
90861027 GTAATCTCCA
*
90861037 TTTTATATTTCATTTTTAT
1 TTTTATATTTAATTTTTAT
*
90861056 TTTTGTATTTAATTTTTAT
1 TTTTATATTTAATTTTTAT
90861075 TTGTTAT
1 TT-TTAT
90861082 CAATTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (19 bp):
TTTTATATTTAATTTTTAT
Found at i:90861156 original size:13 final size:14
Alignment explanation
Indices: 90861133--90861169 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
90861123 TACTATCTCT
90861133 TAAATAATTTAATC
1 TAAATAATTTAATC
90861147 TAAA-AATTTAATC
1 TAAATAATTTAATC
*
90861160 AAAATAATTT
1 TAAATAATTT
90861170 CATTCTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAATAATTTAATC
Found at i:90861317 original size:7 final size:7
Alignment explanation
Indices: 90861305--90861391 Score: 54
Period size: 7 Copynumber: 12.4 Consensus size: 7
90861295 ATCTTGTAAT
90861305 CCCTAAA
1 CCCTAAA
90861312 CCCTAAA
1 CCCTAAA
*
90861319 CCATAAA
1 CCCTAAA
*
90861326 CCCTACA
1 CCCTAAA
*
90861333 -CATAAA
1 CCCTAAA
90861339 CCCTAAA
1 CCCTAAA
* *
90861346 CCTTGAA
1 CCCTAAA
90861353 CCCGT-AA
1 CCC-TAAA
90861360 CCCGT-AA
1 CCC-TAAA
* *
90861367 CCAATAAC
1 CC-CTAAA
90861375 CCCTAAA
1 CCCTAAA
*
90861382 CCTTAAA
1 CCCTAAA
90861389 CCC
1 CCC
90861392 CAGCCCTTAA
Statistics
Matches: 61, Mismatches: 15, Indels: 8
0.73 0.18 0.10
Matches are distributed among these distances:
6 4 0.07
7 53 0.87
8 4 0.07
ACGTcount: A:0.40, C:0.40, G:0.03, T:0.16
Consensus pattern (7 bp):
CCCTAAA
Found at i:90861338 original size:13 final size:14
Alignment explanation
Indices: 90861308--90861347 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
90861298 TTGTAATCCC
90861308 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
90861322 TAAACCCTACA-CA
1 TAAACCCTAAACCA
90861335 TAAACCCTAAACC
1 TAAACCCTAAACC
90861348 TTGAACCCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.15
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:90861422 original size:22 final size:23
Alignment explanation
Indices: 90861395--90861449 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
90861385 TAAACCCCAG
*
90861395 CCCTTAAACCA-TAATTCATAAA
1 CCCTTAAACCAGTAACTCATAAA
**
90861417 CCCTTAAAGTAGTAACTCATAAA
1 CCCTTAAACCAGTAACTCATAAA
*
90861440 CCCTAAAACC
1 CCCTTAAACC
90861450 CTTAACCATA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.44, C:0.29, G:0.04, T:0.24
Consensus pattern (23 bp):
CCCTTAAACCAGTAACTCATAAA
Found at i:90861606 original size:8 final size:7
Alignment explanation
Indices: 90861588--90861667 Score: 54
Period size: 7 Copynumber: 11.3 Consensus size: 7
90861578 ACTAAATAAT
90861588 CTAAACC
1 CTAAACC
90861595 CTAAACCC
1 CTAAA-CC
*
90861603 CTAATCC
1 CTAAACC
*
90861610 CTAATCC
1 CTAAACC
*
90861617 CTAATCC
1 CTAAACC
*
90861624 ATAAACC
1 CTAAACC
* *
90861631 CTGAATC
1 CTAAACC
* *
90861638 ATAAAAC
1 CTAAACC
*
90861645 ATAAACC
1 CTAAACC
90861652 CTAAACC
1 CTAAACC
90861659 ACT-AACC
1 -CTAAACC
90861666 CT
1 CT
90861668 TGACCCTTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
6 2 0.03
7 50 0.83
8 8 0.13
ACGTcount: A:0.41, C:0.38, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:90862043 original size:16 final size:16
Alignment explanation
Indices: 90862022--90862053 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
90862012 CCCCCTTAAA
*
90862022 CCATAATCCCTAAACC
1 CCATAATCCATAAACC
90862038 CCATAATCCATAAACC
1 CCATAATCCATAAACC
90862054 TTAAAATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.19
Consensus pattern (16 bp):
CCATAATCCATAAACC
Found at i:90862097 original size:21 final size:22
Alignment explanation
Indices: 90862063--90862103 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
90862053 CTTAAAATGA
90862063 TAACTCATAAACCTTAAACCCT
1 TAACTCATAAACCTTAAACCCT
*
90862085 TAAC-CATATACCTTAAACC
1 TAACTCATAAACCTTAAACC
90862104 ATAAACCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.27
Consensus pattern (22 bp):
TAACTCATAAACCTTAAACCCT
Found at i:90862103 original size:14 final size:14
Alignment explanation
Indices: 90862070--90862121 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
90862060 TGATAACTCA
*
90862070 TAAACCTTAAACCCT
1 TAAACCATAAA-CCT
*
90862085 T-AACCATATACCT
1 TAAACCATAAACCT
*
90862098 TAAACCATAAACCC
1 TAAACCATAAACCT
*
90862112 TAAACTATAA
1 TAAACCATAA
90862122 TGATAATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 4 0.13
14 26 0.84
15 1 0.03
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACCATAAACCT
Found at i:90863642 original size:31 final size:32
Alignment explanation
Indices: 90863577--90863656 Score: 119
Period size: 31 Copynumber: 2.5 Consensus size: 32
90863567 TCCATATATG
*
90863577 CATATACATTATATATATAATCAAGAACCACA
1 CATATATATTATATATATAATCAAGAACCACA
90863609 CATATATATTATATATATAA-CAA-AACCCACA
1 CATATATATTATATATATAATCAAGAA-CCACA
*
90863640 CATATGTATTATATATA
1 CATATATATTATATATA
90863657 ATACAACCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 2 0.04
31 24 0.53
32 19 0.42
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.33
Consensus pattern (32 bp):
CATATATATTATATATATAATCAAGAACCACA
Found at i:90870651 original size:32 final size:32
Alignment explanation
Indices: 90870609--90870671 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
90870599 TTTGCAAGAG
90870609 CTCGAACAAATTTTACACCATTAGCGACTATA
1 CTCGAACAAATTTTACACCATTAGCGACTATA
*
90870641 CTCGATCAAATTTTACACCATTAGCGACTAT
1 CTCGAACAAATTTTACACCATTAGCGACTAT
90870672 GTAATCACTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (32 bp):
CTCGAACAAATTTTACACCATTAGCGACTATA
Found at i:90872939 original size:22 final size:22
Alignment explanation
Indices: 90872887--90872956 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
90872877 GGCTTCTTGT
90872887 TTTTTC-TTTTCTTTTCTTCC-
1 TTTTTCTTTTTCTTTTCTTCCA
*
90872907 TTTTGTTTTTTTCTTTTCTTCCA
1 TTTT-TCTTTTTCTTTTCTTCCA
* *
90872930 TTTTTCTTTTTGCTTTGCTGCCA
1 TTTTTCTTTTT-CTTTTCTTCCA
90872953 TTTT
1 TTTT
90872957 GTGTTTTAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 4 0.10
21 1 0.02
22 20 0.48
23 17 0.40
ACGTcount: A:0.03, C:0.20, G:0.06, T:0.71
Consensus pattern (22 bp):
TTTTTCTTTTTCTTTTCTTCCA
Found at i:90872939 original size:23 final size:23
Alignment explanation
Indices: 90872893--90872963 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
90872883 TTGTTTTTTC
90872893 TTTTCTTTTCTTCC-TTTTGTTT
1 TTTTCTTTTCTTCCATTTTGTTT
90872915 TTTTCTTTTCTTCCATTTT-TCTT
1 TTTTCTTTTCTTCCATTTTGT-TT
* * * *
90872938 TTTGCTTTGCTGCCATTTTGTGT
1 TTTTCTTTTCTTCCATTTTGTTT
90872961 TTT
1 TTT
90872964 AGTGGTAACC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
22 15 0.36
23 26 0.62
24 1 0.02
ACGTcount: A:0.03, C:0.18, G:0.08, T:0.70
Consensus pattern (23 bp):
TTTTCTTTTCTTCCATTTTGTTT
Found at i:90878784 original size:46 final size:46
Alignment explanation
Indices: 90878734--90878906 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
90878724 TGGTTGAGCA
*
90878734 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
90878780 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
90878827 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
90878873 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
90878907 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:90878890 original size:93 final size:93
Alignment explanation
Indices: 90878731--90878901 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
90878721 GGATGGTTGA
* *
90878731 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
90878796 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
90878824 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
90878889 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
90878902 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:90879167 original size:19 final size:20
Alignment explanation
Indices: 90879130--90879167 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
90879120 ATAAGGTGGT
90879130 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
90879150 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
90879168 TGGTGTACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:90886359 original size:46 final size:46
Alignment explanation
Indices: 90886309--90886433 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
90886299 TGGTTGAGCA
*
90886309 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
90886355 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
90886401 CCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
90886434 GGGGCGGGTT
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
45 11 0.15
46 62 0.85
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:90886693 original size:19 final size:20
Alignment explanation
Indices: 90886656--90886693 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
90886646 ATAAGGTGGT
90886656 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
90886676 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
90886694 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:90888987 original size:39 final size:39
Alignment explanation
Indices: 90888942--90889018 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
90888932 GTCTGTATTT
*
90888942 TGACAGGTTTGTGGTGGTATTTATAGATGATATTTTGGG
1 TGACAGGTTTGTGGTGGTATTTATAGATGATATCTTGGG
90888981 TGACAGGTTTGTGGTGGTATTTATAGATGATATCTTGG
1 TGACAGGTTTGTGGTGGTATTTATAGATGATATCTTGG
90889019 TTTACCCTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.21, C:0.04, G:0.32, T:0.43
Consensus pattern (39 bp):
TGACAGGTTTGTGGTGGTATTTATAGATGATATCTTGGG
Found at i:90891625 original size:37 final size:37
Alignment explanation
Indices: 90891584--90891655 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
90891574 TTTAGCTCGA
*
90891584 ATAATCCCCACACGTAGTCATCGGGTCTTACCCGGGC
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
*
90891621 ATAATCTCCACACGTAGCCATCGGGTCTTACCCGG
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCGG
90891656 AATATATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.22
Consensus pattern (37 bp):
ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
Found at i:90891854 original size:48 final size:48
Alignment explanation
Indices: 90891789--90891894 Score: 167
Period size: 48 Copynumber: 2.2 Consensus size: 48
90891779 CGGCCACAAT
* * *
90891789 ATATACACATCTTATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
90891837 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
90891885 ACATATATAT
1 ATATACATAT
90891895 ATTTATCTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
Found at i:90898442 original size:22 final size:22
Alignment explanation
Indices: 90898416--90898488 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
90898406 TAGGATATTC
90898416 TATGATATGTTCTGATATGAAA
1 TATGATATGTTCTGATATGAAA
*
90898438 TATGATATGTTCTGATATGAAG
1 TATGATATGTTCTGATATGAAA
* *
90898460 TATGATATGTTTTGATATGAGA
1 TATGATATGTTCTGATATGAAA
*
90898482 TACGATA
1 TATGATA
90898489 ACCTTCAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (22 bp):
TATGATATGTTCTGATATGAAA
Found at i:90898500 original size:44 final size:44
Alignment explanation
Indices: 90898416--90898500 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
90898406 TAGGATATTC
* ** *
90898416 TATGATATGTTCTGATATGAAATATGATATGTTCTGATATGAAG
1 TATGATATGTTCTGATATGAAATACGATACCTTCTAATATGAAG
* *
90898460 TATGATATGTTTTGATATGAGATACGATAACCTTC-AATATG
1 TATGATATGTTCTGATATGAAATACGAT-ACCTTCTAATATG
90898501 TTATATGATA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 30 0.88
45 4 0.12
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (44 bp):
TATGATATGTTCTGATATGAAATACGATACCTTCTAATATGAAG
Done.