Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 332 of 378
Found at i:100829038 original size:27 final size:27
Alignment explanation
Indices: 100828909--100829042 Score: 72
Period size: 27 Copynumber: 5.3 Consensus size: 27
100828899 CCATTGGGCC
*
100828909 TCATCACATATACATACACTTTCACAT
1 TCATCACATATACATCCACTTTCACAT
** *** *
100828936 TCATCAC--AT-CGGCCA-TTGGGC-C
1 TCATCACATATACATCCACTTTCACAT
*
100828958 TCATCACATATACATACACTTTCACAT
1 TCATCACATATACATCCACTTTCACAT
** *** *
100828985 TCATCAC--AT-CGGCCA-TTAGGC-C
1 TCATCACATATACATCCACTTTCACAT
100829007 TCATCACATATACATCCACTTTCACAT
1 TCATCACATATACATCCACTTTCACAT
100829034 TCATCACAT
1 TCATCACAT
100829043 CGGCCATTAG
Statistics
Matches: 70, Mismatches: 27, Indels: 20
0.60 0.23 0.17
Matches are distributed among these distances:
22 14 0.20
23 6 0.09
24 10 0.14
25 11 0.16
26 6 0.09
27 23 0.33
ACGTcount: A:0.31, C:0.33, G:0.07, T:0.30
Consensus pattern (27 bp):
TCATCACATATACATCCACTTTCACAT
Found at i:100829077 original size:37 final size:37
Alignment explanation
Indices: 100829027--100829101 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
100829017 TACATCCACT
100829027 TTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACA
100829064 TTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACA
100829101 T
1 T
100829102 ATACATACAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.32, G:0.11, T:0.31
Consensus pattern (37 bp):
TTCACATTCATCACATCGGCCATTAGGCCTTATCACA
Found at i:100829080 original size:86 final size:86
Alignment explanation
Indices: 100828978--100829149 Score: 308
Period size: 86 Copynumber: 2.0 Consensus size: 86
100828968 TACATACACT
*
100828978 TTCACATTCATCACATCGGCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACAT
1 TTCACATTCATCACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACAT
100829043 CGGCCATTAGGCCTTATCACA
66 CGGCCATTAGGCCTTATCACA
*
100829064 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACAT
1 TTCACATTCATCACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACAT
* *
100829129 TGGCCATTCGGCCTTATCACA
66 CGGCCATTAGGCCTTATCACA
100829150 CATATATGTA
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:0.28, C:0.33, G:0.09, T:0.30
Consensus pattern (86 bp):
TTCACATTCATCACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACA
Found at i:100837933 original size:64 final size:64
Alignment explanation
Indices: 100837858--100837982 Score: 189
Period size: 64 Copynumber: 2.0 Consensus size: 64
100837848 TTCATAGTAC
* *
100837858 ATCTAGTTAGGAGCATTT-GATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCATCAT
1 ATCTAGCTAGGAGCATTTGGATT-ATTTCGATCATAGCATCCTAATTATTTGACATAAGCATCAT
* * *
100837922 ATCTAGCTAGGAGCATTTGGATTATTTCGATCATAGTATCCTAGTTATTTGGCATAAGCAT
1 ATCTAGCTAGGAGCATTTGGATTATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
100837983 AGATACAGGA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 51 0.93
65 4 0.07
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (64 bp):
ATCTAGCTAGGAGCATTTGGATTATTTCGATCATAGCATCCTAATTATTTGACATAAGCATCAT
Found at i:100838233 original size:45 final size:44
Alignment explanation
Indices: 100838176--100839125 Score: 210
Period size: 45 Copynumber: 21.3 Consensus size: 44
100838166 AGGTTGGAGA
* * *
100838176 TACAGGTCTTATCTTCCTGAAGTTGCAGGAAGTAGACCGAAAAGT
1 TACAGATCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-T
** * ***
100838221 TACAGATCTTATCTTTATGTACCGGCTATGG-AGCAGA-TCGAAAAT
1 TACAGATCTTATCTTCCTGAAGTTGC-A-GGAAGCAGACT-GAAAAT
* * * *
100838266 GACA-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-
1 TACAGA-TCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAAAT
* * * * *
100838310 CAGCAAATCTTATCTTCTTGAAGTTGTAGGAAGGAGACT-AAAAGT
1 TA-CAGATCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-T
* * *
100838355 TACAGATCTTATC-TCCATGTATCGGTT--ATGG-AGTAGATTGAAAAT
1 TACAGATCTTATCTTCC-TG-A--AGTTGCA-GGAAGCAGACTGAAAAT
* *
100838400 GAC-GAGTCTTATCTAT-CTGAAGTTGCAGTGGAGCAGACTGAAAA-
1 TACAGA-TCTTATCT-TCCTGAAGTTGCAG-GAAGCAGACTGAAAAT
*
100838444 TAGCA-AGTCTTATCTTCCTGAAGTTGCAAGAAGCAGACTG-AAAT
1 TA-CAGA-TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAT
* * * *
100838488 TACAGATCTTATC-TCCATGTA-TCGGCTATGG-AGCAGA-TAAAAAA
1 TACAGATCTTATCTTCC-TGAAGT-TGC-A-GGAAGCAGACTGAAAAT
* * *** **
100838532 TAGC-GAGTCTTATC-TCCATGTA-TCGGCTATGG-AGCAGA-TTTTAGC
1 TA-CAGA-TCTTATCTTCC-TGAAGT-TGC-A-GGAAGCAGACTGAAAAT
*
100838577 CACTAG-TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATT
1 TAC-AGATCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-T
* * *
100838622 TATAGATCTTATC-TCCAT-ATA-TCGACTATGG-AGCAGA-TCAAAAAT
1 TACAGATCTTATCTTCC-TGA-AGTTG-C-A-GGAAGCAGACT-GAAAAT
* * *
100838667 GACA-AGTCTTATC-TCTCTGAAGTTGCAGTGGAGCAGACTGAAGA-
1 TACAGA-TCTTATCTTC-CTGAAGTTGCAG-GAAGCAGACTGAAAAT
100838711 TAGCA-AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTG-AAAT
1 TA-CAGA-TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAT
* * * *
100838755 TACAGATCTCATC-TCCATGTA-TCGGCTATGG-AGCAGA-TCAAAAAT
1 TACAGATCTTATCTTCC-TGAAGT-TGC-A-GGAAGCAGACT-GAAAAT
**** * * * *** *
100838800 GGTGGGTCTTATC-TCCATGTA-TCGGCTATGG-AGCAGA-TTTCAAC
1 TACAGATCTTATCTTCC-TGAAGT-TGC-A-GGAAGCAGACTGAAAAT
* * ** * *
100838844 CACCGGCCTTATCTCCCTGAAGTTGCAGTGGAA-CAGACTGAAGA-
1 TACAGATCTTATCTTCCTGAAGTTGCA--GGAAGCAGACTGAAAAT
* * * *
100838888 TAGCA-AGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-
1 TA-CAGA-TCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAAAT
* * *
100838933 TAGCA-AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAA-
1 TA-CAGA-TCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAAAT
*
100838978 TAGCA-AGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAAT
1 TA-CAGA-TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAT
* * * * * **
100839023 TACAAATCTTATC-TCC--AGGTAT-CAGCTATTGAGCAGA-TCACAGC
1 TACAGATCTTATCTTCCTGAAGT-TGCAG-GA---AGCAGACTGAAAAT
100839067 TACTAG-TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAGT
1 TAC-AGATCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-T
100839112 TACAGATCTTATCT
1 TACAGATCTTATCT
100839126 CCATGTATCG
Statistics
Matches: 695, Mismatches: 119, Indels: 182
0.70 0.12 0.18
Matches are distributed among these distances:
41 6 0.01
42 15 0.02
43 59 0.08
44 171 0.25
45 389 0.56
46 41 0.06
47 14 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
TACAGATCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAT
Found at i:100838366 original size:134 final size:133
Alignment explanation
Indices: 100838095--100839107 Score: 914
Period size: 134 Copynumber: 7.6 Consensus size: 133
100838085 AAATGGTGGG
** *** * * *
100838095 TCTTATCTCCATGTATCGGCTATGGAGCAGAT-TTAAGCCACCAGCCTTATCTCTCTGAAGTTGC
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGACAAGTCTTATCTCCCTGAAGTTGC
* ** * * * * *
100838159 AG-AGAGCAGGTTGGAGATA-CAGGTCTTATCTTCCTGAAGTTGCAGGAAGTAGACCGAAAAGTT
66 AGTGGAGCAGACTGAAGACAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGA-CTAAAA-TT
100838222 ACAGA
129 ACAGA
** * *
100838227 TCTTATCTTTATGTACCGGCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGACAAGTCTTATCTCCCTGAAGTTGC
* * * *
100838292 AGTGGAGCAGACTGAAGACAGCAAATCTTATCTTCTTGAAGTTGTAGGAAGGAGACTAAAAGTTA
66 AGTGGAGCAGACTGAAGACAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTAAAA-TTA
100838357 CAGA
130 CAGA
* * ** * **
100838361 TCTTATCTCCATGTATCGGTTATGGAGTAGATTGAAAATGACGAGTCTTATCTATCTGAAGTTGC
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGACAAGTCTTATCTCCCTGAAGTTGC
* * * *
100838426 AGTGGAGCAGACTGAAAATAGCAAGTCTTATCTTCCTGAAGTTGCAAGAAGCAGACTGAAATTAC
66 AGTGGAGCAGACTGAAGACAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTAAAATTAC
100838491 AGA
131 AGA
* * * * *
100838494 TCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAAT-AGCGAGTCTTATCTCCATGTA-TCG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGA-CAAGTCTTATCTCCCTGAAGT-T
* ** * *
100838557 GCTA-TGGAGCAGATTTTAGCCA-CTAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA
64 GC-AGTGGAGCAGACTGAAGACAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACT-AAAA
*
100838620 TTTATAGA
127 -TTACAGA
* * *
100838628 TCTTATCTCCATATATCGACTATGGAGCAGATCAAAAATGACAAGTCTTATCTCTCTGAAGTTGC
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGACAAGTCTTATCTCCCTGAAGTTGC
* *
100838693 AGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAATTAC
66 AGTGGAGCAGACTGAAGACAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTAAAATTAC
100838758 AGA
131 AGA
* **** * * *
100838761 TCTCATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGTGGGTCTTATCTCCATGTA-TCGG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGACAAGTCTTATCTCCCTGAAGT-TG
* * * ** * *
100838825 CTA-TGGAGCAGATTTCAA-CCA-CCGGCCTTATCTCCCTGAAGTTGCAGTGGAA-CAGACTGAA
65 C-AGTGGAGCAGA-CTGAAGACAGCAAGTCTTATCTTCCTGAAGTTGCA--GGAAGCAGACT-AA
*
100838886 GA-TAGCA-A
125 AATTA-CAGA
* * * * * *
100838894 GCCTTATCTCCCTGAAGT-TGC-AGTGGAGCAGA-CTGAAGAT-AGCAAGTCTTATCTCCCTGAA
1 -TCTTATCTCCATGTA-TCGGCTA-TGGAGCAGATC-AAAAATGA-CAAGTCTTATCTCCCTGAA
* * * *
100838955 GTTACAGTGGAGCAGACTGAAAATAGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAA
61 GTTGCAGTGGAGCAGACTGAAGACAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACT-AA
*
100839020 AATTACAAA
125 AATTACAGA
* * * * ** * *
100839029 TCTTATCTCCAGGTATCAGCTATTGAGCAGATCACAGCT-ACTAGTCTTATCTTCCTGAAGTTGC
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGACAAGTCTTATCTCCCTGAAGTTGC
*
100839093 AG-GAAGCAGACTGAA
66 AGTGGAGCAGACTGAA
100839108 AAGTTACAGA
Statistics
Matches: 714, Mismatches: 133, Indels: 68
0.78 0.15 0.07
Matches are distributed among these distances:
132 99 0.14
133 212 0.30
134 310 0.43
135 93 0.13
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (133 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGACAAGTCTTATCTCCCTGAAGTTGC
AGTGGAGCAGACTGAAGACAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTAAAATTAC
AGA
Found at i:100838524 original size:267 final size:266
Alignment explanation
Indices: 100838095--100839080 Score: 1064
Period size: 267 Copynumber: 3.7 Consensus size: 266
100838085 AAATGGTGGG
* *** * *
100838095 TCTTATCTCCATGTATCGGCTATGGAGCAGATT-TAAGCCACCAGCCTTATCTCTCTGAAGTTGC
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTGAAAATGACAAGTCTTATCTCTCTGAAGTTGC
* ** * * * * *
100838159 AG-AGAGCAGGTTGGAGATA-CAGGTCTTATCTTCCTGAAGTTGCAGGAAGTAGACCGAAAAGTT
66 AGTGGAGCAGACTGAAAATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-TT
** * * * *
100838222 ACAGATCTTATCTTTATGTACCGGCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCCTGAA
130 ACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAAT-ACGAGTCTTATCTCCATGAA
* * * * * *
100838287 GT-TGC-AGTGGAGCAGACTGAAGACAGCAAATCTTATCTTCTTGAAGTTGTAGGAAGGAGACTA
194 -TCGGCTA-TGGAGCAGACTGAAGCCA-CAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTA
100838350 AAAGTTACAGA
256 AAAGTTACAGA
* * * *
100838361 TCTTATCTCCATGTATCGGTTATGGAGTAGATTGAAAATGACGAGTCTTATCTATCTGAAGTTGC
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTGAAAATGACAAGTCTTATCTCTCTGAAGTTGC
*
100838426 AGTGGAGCAGACTGAAAATAGCAAGTCTTATCTTCCTGAAGTTGCAAGAAGCAGACTG-AAATTA
66 AGTGGAGCAGACTGAAAATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTA
* *
100838490 CAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAATAGCGAGTCTTATCTCCATGTAT
131 CAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATA-CGAGTCTTATCTCCATGAAT
* ** *
100838555 CGGCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA
195 CGGCTATGGAGCAGACTGAAGCCACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACT-AAAA
* *
100838620 TTTATAGA
259 GTTACAGA
* * **
100838628 TCTTATCTCCATATATCGACTATGGAGCAGATCAAAAATGACAAGTCTTATCTCTCTGAAGTTGC
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTGAAAATGACAAGTCTTATCTCTCTGAAGTTGC
*
100838693 AGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTG-AAATTA
66 AGTGGAGCAGACTGAAAATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTA
* ** * *
100838757 CAGATCTCATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGTGGGTCTTATCTCCATGTAT
131 CAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAAT-ACGAGTCTTATCTCCATGAAT
* * ** * * *
100838822 CGGCTATGGAGCAGATTTCAA-CCACCGGCCTTATCTCCCTGAAGTTGCAGTGGAA-CAGACT-G
195 CGGCTATGGAGCAGA-CTGAAGCCACAAGTCTTATCTTCCTGAAGTTGCA--GGAAGCAGACTAA
*
100838884 AAGATAGCA-A
257 AAGTTA-CAGA
* * * * * * *
100838894 GCCTTATCTCCCTGAAGT-TGC-AGTGGAGCAGACTGAAGAT-AGCAAGTCTTATCTCCCTGAAG
1 -TCTTATCTCCATGTA-TCGGCTA-TGGAGCAGATTGAAAATGA-CAAGTCTTATCTCTCTGAAG
* *
100838956 TTACAGTGGAGCAGACTGAAAATAGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAA
62 TTGCAGTGGAGCAGACTGAAAATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAA
* * * * * ** *
100839021 ATTACAAATCTTATCTCCAGGTATCAGCTATTGAGCAGATCACAGCTACTAGTCTTATCT
127 ATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATACGAGTCTTATCT
100839081 TCCTGAAGTT
Statistics
Matches: 614, Mismatches: 89, Indels: 33
0.83 0.12 0.04
Matches are distributed among these distances:
266 71 0.12
267 439 0.71
268 67 0.11
269 37 0.06
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (266 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTGAAAATGACAAGTCTTATCTCTCTGAAGTTGC
AGTGGAGCAGACTGAAAATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTA
CAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATACGAGTCTTATCTCCATGAATC
GGCTATGGAGCAGACTGAAGCCACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTAAAAGT
TACAGA
Found at i:100838963 original size:90 final size:89
Alignment explanation
Indices: 100838851--100839038 Score: 270
Period size: 90 Copynumber: 2.1 Consensus size: 89
100838841 AACCACCGGC
* *
100838851 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCAAGCCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTACAGTGGAACAGACTGAAAATAGCAAGCCTTATCTCCCTGAAGTTGCA
* * *
100838916 GTGGAGCAGACTGAAGA-TAGCAAGT
66 G-GAAGCAGACTGAAAATTA-CAAAT
* * * *
100838941 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAATAGCAAGTCTTATCTTCTTGAAGTTGCA
1 CTTATCTCCCTGAAGTTACAGTGGAACAGACTGAAAATAGCAAGCCTTATCTCCCTGAAGTTGCA
100839006 GGAAGCAGACTGAAAATTACAAAT
66 GGAAGCAGACTGAAAATTACAAAT
100839030 CTTATCTCC
1 CTTATCTCC
100839039 AGGTATCAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
89 26 0.30
90 62 0.70
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (89 bp):
CTTATCTCCCTGAAGTTACAGTGGAACAGACTGAAAATAGCAAGCCTTATCTCCCTGAAGTTGCA
GGAAGCAGACTGAAAATTACAAAT
Found at i:100839105 original size:222 final size:221
Alignment explanation
Indices: 100838669--100839107 Score: 503
Period size: 223 Copynumber: 2.0 Consensus size: 221
100838659 TCAAAAATGA
* * *
100838669 CAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAG
1 CAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTCCCTGAAG
* * *
100838734 TTGCAGGAAGCAGACTGAAATTACAGATCTCATCTCCATGTATCGGCTATGGAGCAGATCAAAAA
66 TTACAGGAAGCAGACTGAAAATACAGATCTCATCTCCATGAATCGGCTATGGAGCAGATCAAAAA
***** * * ** *
100838799 TGGTGGGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTCAACCACCGGCCTTATCTCCCTGA
131 TGACAAATCTTATCTCCAGGTATCAGCTATGGAGCAGATCACAACCACCAGCCTTATCTCCCTGA
100838864 AGTTGCAGTGGAACAGACTGAAGATAG
196 AGTTGCAG-GGAACAGACTGAAGATAG
100838891 CAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTCCCTGAAG
1 CAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTCCCTGAAG
* * * * *
100838956 TTACAGTGGAGCAGACTGAAAATAGCA-AGTCTTATCTTCTTGAAGT-TGC-A-GGAAGCAGA-C
66 TTACAG-GAAGCAGACTGAAAATA-CAGA-TCTCATCTCCATGAA-TCGGCTATGG-AGCAGATC
* * * * * * *
100839016 TGAAAATTACAAATCTTATCTCCAGGTATCAGCTATTGAGCAGATCACAGCTACTAGTCTTATCT
126 -AAAAATGACAAATCTTATCTCCAGGTATCAGCTATGGAGCAGATCACAACCACCAGCCTTATCT
*
100839081 TCCTGAAGTTGCA-GGAAGCAGACTGAA
190 CCCTGAAGTTGCAGGGAA-CAGACTGAA
100839108 AAGTTACAGA
Statistics
Matches: 181, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
221 4 0.02
222 79 0.44
223 82 0.45
224 15 0.08
225 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (221 bp):
CAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTCCCTGAAG
TTACAGGAAGCAGACTGAAAATACAGATCTCATCTCCATGAATCGGCTATGGAGCAGATCAAAAA
TGACAAATCTTATCTCCAGGTATCAGCTATGGAGCAGATCACAACCACCAGCCTTATCTCCCTGA
AGTTGCAGGGAACAGACTGAAGATAG
Found at i:100839140 original size:89 final size:88
Alignment explanation
Indices: 100838983--100839149 Score: 280
Period size: 88 Copynumber: 1.9 Consensus size: 88
100838973 GAAAATAGCA
*
100838983 AGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCAGGTATCAG
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCAGGTATCAG
*
100839048 CTATTGAGCAGATCACAGCTACT
66 CTATGGAGCAGATCACAGCTACT
* * *
100839071 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATCG
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-TTACAAATCTTATCTCCAGGTATCA
100839136 GCTATGGAGCAGAT
65 GCTATGGAGCAGAT
100839150 TTTAGCCACC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
88 38 0.52
89 35 0.48
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (88 bp):
AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCAGGTATCAG
CTATGGAGCAGATCACAGCTACT
Found at i:100839168 original size:267 final size:267
Alignment explanation
Indices: 100838404--100839191 Score: 730
Period size: 267 Copynumber: 3.0 Consensus size: 267
100838394 GAAAATGACG
** *
100838404 AGTCTTATCTATCTGAAGTTGCAGTGGAGCAGACTGAAAATAGCAAGTCTTATCTTCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAATAGCAAGTCTTATCTTCCTGAAGTT
* * * * * *
100838469 GCAAGAAGCAGACTGAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAATA
66 GCAGGAAGCAGACTGAAATTACAAATCTCATCTCCAGGTATCAGCTATGGAGCAGATCAAAAATA
* *** * *
100838534 GC-GAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACTAG-TCTTATCTTCC-TG
131 -CTGAGTCTTATCTCCATGAATCGGCTATGGAGCAGATGAAAACCAC-AGACCTTATC-TCCATG
* ** * * * * *
100838596 AAGTTGCA--GGAAGCAGACTGAA-A-ATTTATAGATCTTATCTCCATATA-TCGACTATGGAGC
193 AAGTGGCAGTGGAA-CAGACTGAAGACA-CCA-AG-CCTTATCTCCCTAAAGTTG-CAATGGAGC
* *
100838656 AGA-TCAA-AAATGACA
253 AGACTGAAGATA-G-CA
* * *
100838671 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAATAGCAAGTCTTATCTTCCTGAAGTT
* * * *
100838736 GCAGGAAGCAGACTGAAATTACAGATCTCATCTCCATGTATCGGCTATGGAGCAGATCAAAAATG
66 GCAGGAAGCAGACTGAAATTACAAATCTCATCTCCAGGTATCAGCTATGGAGCAGATCAAAAATA
* * * *** * * *
100838801 GTGGGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTCAACCACCGGCCTTATCTCCCTGAAG
131 CTGAGTCTTATCTCCATGAATCGGCTATGGAGCAGATGAAAACCACAGACCTTATCTCCATGAAG
* * * * *
100838866 TTGCAGTGGAACAGACTGAAGATAGCAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
196 TGGCAGTGGAACAGACTGAAGACACCAAGCCTTATCTCCCTAAAGTTGCAATGGAGCAGACTGAA
100838931 GATAGCA
261 GATAGCA
*
100838938 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAATAGCAAGTCTTATCTTCTTGAAGTT
1 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAATAGCAAGTCTTATCTTCCTGAAGTT
* * * **
100839003 GCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCAGGTATCAGCTATTGAGCAGATCACAGCT
66 GCAGGAAGCAGACTG-AAATTACAAATCTCATCTCCAGGTATCAGCTATGGAGCAGATCAAAAAT
* ** *
100839068 ACT-AGTCTTATCTTCC-TGAAGT-TGC-A-GGAAGCAGACTGAAAAGTTACAGATCTTATCTCC
130 ACTGAGTCTTATC-TCCATGAA-TCGGCTATGG-AGCAGA-TGAAAA-CCACAGACCTTATCTCC
* * * ** *
100839128 ATGTA-TCGGCTA-TGGAGCAGATTTTAGCCACCAA-CCTTATCTCCCTAAAGTTGCAATGGAGC
190 ATGAAGT-GGC-AGTGGAACAGACTGAAGACACCAAGCCTTATCTCCCTAAAGTTGCAATGGAGC
100839190 AG
253 AG
100839192 GTCGAAGTTA
Statistics
Matches: 443, Mismatches: 60, Indels: 36
0.82 0.11 0.07
Matches are distributed among these distances:
265 2 0.00
266 11 0.02
267 325 0.73
268 95 0.21
269 9 0.02
270 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (267 bp):
AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAATAGCAAGTCTTATCTTCCTGAAGTT
GCAGGAAGCAGACTGAAATTACAAATCTCATCTCCAGGTATCAGCTATGGAGCAGATCAAAAATA
CTGAGTCTTATCTCCATGAATCGGCTATGGAGCAGATGAAAACCACAGACCTTATCTCCATGAAG
TGGCAGTGGAACAGACTGAAGACACCAAGCCTTATCTCCCTAAAGTTGCAATGGAGCAGACTGAA
GATAGCA
Found at i:100839179 original size:89 final size:88
Alignment explanation
Indices: 100838998--100839182 Score: 244
Period size: 89 Copynumber: 2.1 Consensus size: 88
100838988 TATCTTCTTG
*
100838998 AAGTTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCAGGTATCAGCTATTGAGCAGATCA
1 AAGTTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCAGGTATCAGCTATGGAGCAGATCA
* * ** * *
100839063 CAGCTACTAGTCTTATCTTCCTG
66 CAGCCACCAACCTTATCTCCCTA
* * * *
100839086 AAGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATT
1 AAGTTGCAGGAAGCAGACTGAAAA-TTACAAATCTTATCTCCAGGTATCAGCTATGGAGCAGATC
**
100839151 TTAGCCACCAACCTTATCTCCCTA
65 ACAGCCACCAACCTTATCTCCCTA
100839175 AAGTTGCA
1 AAGTTGCA
100839183 ATGGAGCAGG
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
88 24 0.29
89 59 0.71
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (88 bp):
AAGTTGCAGGAAGCAGACTGAAAATTACAAATCTTATCTCCAGGTATCAGCTATGGAGCAGATCA
CAGCCACCAACCTTATCTCCCTA
Found at i:100839783 original size:5 final size:6
Alignment explanation
Indices: 100839749--100839782 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
100839739 TCATTTCGTA
100839749 TTTCTT TTTCTT TTTCTT TTTCTT GCTTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT --TTTCTT TT
100839783 CCTTACAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.77
8 6 0.23
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTCTT
Found at i:100841515 original size:125 final size:126
Alignment explanation
Indices: 100841093--100841536 Score: 446
Period size: 132 Copynumber: 3.5 Consensus size: 126
100841083 AACATAAGGA
* * ** * * *
100841093 AATATCTCGTATTTGGGGAGTTTCAGAGATCGTGTCCAATCGTGCTGGGTTTCGTTTTTTTCATT
1 AATATTTCGTATTT-GGAAGTTTGGGAAATCGTGCCCAATCGTGCTGGGTTTCGTATTTTTCATT
*
100841158 CGACTAAAATACGGAATATCCTTTGGAAATTTCGTCCACGTTTT-TAAAAAAAAAATTAAAATGA
65 CGACTAAAATACGGAATATCCTTTTGAAATTTCGTCCACGTTTTCT------AAAATTAAAATGA
100841222 GGC
124 GGC
* * * * *
100841225 AATATTTCGTATTTGGGGAGTTTGGGAGATCGTGCCCAATCGTGCTGGATTTCGTTTTTTTCGTT
1 AATATTTCGTATTT-GGAAGTTTGGGAAATCGTGCCCAATCGTGCTGGGTTTCGTATTTTTCATT
* * *
100841290 CGACTAAAATATGGAATATCCTTTTTTGAAATTTTCATCCACGTTTTCTTAAAA-TAAAACGAGG
65 CGACTAAAATACGGAATATCC--TTTTGAAA-TTTCGTCCACGTTTTC-TAAAATTAAAATGAGG
100841354 C
126 C
** * * * * * *
100841355 AATATTTCGTGCTTGGAAGTTTGGGGAGTCATGCCCAATCGTGCTGGGCTTC-AATTTTCCATTC
1 AATATTTCGTATTTGGAAGTTTGGGAAATCGTGCCCAATCGTGCTGGGTTTCGTATTTTTCATTC
** * * *
100841419 GACTAAAATACAAAATATCCTTTTGAAGTTTCGTCCATGTTTTCTCAAATTAAAATGAGGC
66 GACTAAAATACGGAATATCCTTTTGAAATTTCGTCCACGTTTTCTAAAATTAAAATGAGGC
* * * **
100841480 AATGTTTCGTATTTGGAAATTCGATAAATCGTGCCCAATCGTGCTGGGTTTCG-ATTT
1 AATATTTCGTATTTGGAAGTTTGGGAAATCGTGCCCAATCGTGCTGGGTTTCGTATTT
100841537 ACCGTTTGGG
Statistics
Matches: 263, Mismatches: 42, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
124 4 0.02
125 69 0.26
126 7 0.03
128 25 0.10
129 31 0.12
130 22 0.08
131 4 0.02
132 79 0.30
134 7 0.03
135 14 0.05
137 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (126 bp):
AATATTTCGTATTTGGAAGTTTGGGAAATCGTGCCCAATCGTGCTGGGTTTCGTATTTTTCATTC
GACTAAAATACGGAATATCCTTTTGAAATTTCGTCCACGTTTTCTAAAATTAAAATGAGGC
Found at i:100842084 original size:24 final size:24
Alignment explanation
Indices: 100842056--100842107 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
100842046 TTAACAAGTC
* *
100842056 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
100842080 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
100842104 AAAT
1 AAAT
100842108 CTTCTGGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:100844947 original size:41 final size:41
Alignment explanation
Indices: 100844875--100845177 Score: 314
Period size: 41 Copynumber: 7.7 Consensus size: 41
100844865 AATTGTACAT
* *
100844875 TAGCGGCATTTTTGCTAAAACGCCGCTAAAAA-TAGAGCAA
1 TAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACTAGAGCAA
100844915 TAGCGGCGTTTTTGGTAAGAACGCCGCTAAAAA-TAGAGCAA
1 TAGCGGCGTTTTTGGTAA-AACGCCGCTAAAAACTAGAGCAA
**** *
100844956 TAGCGGCGTTTTACCAAAAACGCCGCTAAAAACCAGAGCAA
1 TAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACTAGAGCAA
* *
100844997 TAGCGGCGTTTTTGGTAAAACACCGCTAAAAACCAGAGCAA
1 TAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACTAGAGCAA
*
100845038 TAGTGGCGTTTTTGGTAAAACGCCGCTAAAAACTAGAGCAA
1 TAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACTAGAGCAA
*
100845079 TAGCGACG--TTT--T------CC-C-AAAAAC-AGAGCAA
1 TAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACTAGAGCAA
* * * *
100845107 TAGCAGCGTTTTTAGTAAAATGCCGCT-AAAACCAGAGCAA
1 TAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACTAGAGCAA
* * *
100845147 TAGTGTCGTTTATGGTCAAAACGCCGCTAAA
1 TAGCGGCGTTTTTGGT-AAAACGCCGCTAAA
100845178 GGTCATATAA
Statistics
Matches: 221, Mismatches: 25, Indels: 32
0.79 0.09 0.12
Matches are distributed among these distances:
28 13 0.06
29 6 0.03
30 4 0.02
31 2 0.01
32 1 0.00
37 1 0.00
38 2 0.01
39 9 0.04
40 48 0.22
41 133 0.60
42 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (41 bp):
TAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACTAGAGCAA
Found at i:100845096 original size:123 final size:122
Alignment explanation
Indices: 100844875--100845099 Score: 362
Period size: 123 Copynumber: 1.8 Consensus size: 122
100844865 AATTGTACAT
* *
100844875 TAGCGGCATTTTTGCTAAAACGCCGCTAAAAATAGAGCAATAGCGGCGTTTTTGGTAAGAACGCC
1 TAGCGGCATTTTTGCTAAAACACCGCTAAAAACAGAGCAATAGCGGCGTTTTTGGTAAGAACGCC
*
100844940 GCTAAAAATAGAGCAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAACCAGAGCAA
66 GCTAAAAATAGAGCAATAGCGACGTTTTACCAAAAACGCCGCTAAAAACCAGAGCAA
* * *
100844997 TAGCGGCGTTTTTGGTAAAACACCGCTAAAAACCAGAGCAATAGTGGCGTTTTTGGTAA-AACGC
1 TAGCGGCATTTTTGCTAAAACACCGCTAAAAA-CAGAGCAATAGCGGCGTTTTTGGTAAGAACGC
*
100845061 CGCTAAAAACTAGAGCAATAGCGACGTTTTCCCAAAAAC
65 CGCTAAAAA-TAGAGCAATAGCGACGTTTTACCAAAAAC
100845100 AGAGCAATAG
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
122 43 0.46
123 51 0.54
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (122 bp):
TAGCGGCATTTTTGCTAAAACACCGCTAAAAACAGAGCAATAGCGGCGTTTTTGGTAAGAACGCC
GCTAAAAATAGAGCAATAGCGACGTTTTACCAAAAACGCCGCTAAAAACCAGAGCAA
Found at i:100845126 original size:29 final size:29
Alignment explanation
Indices: 100845063--100845118 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
100845053 TAAAACGCCG
*
100845063 CTAAAAACTAGAGCAATAGCGACGTTTTC
1 CTAAAAACTAGAGCAATAGCGACGTTTTA
*
100845092 CCAAAAAC-AGAGCAATAGC-AGCGTTTT
1 CTAAAAACTAGAGCAATAGCGA-CGTTTT
100845119 TAGTAAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 1 0.04
28 17 0.68
29 7 0.28
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (29 bp):
CTAAAAACTAGAGCAATAGCGACGTTTTA
Found at i:100845414 original size:7 final size:7
Alignment explanation
Indices: 100845402--100845458 Score: 60
Period size: 7 Copynumber: 8.0 Consensus size: 7
100845392 TTTATTTTGG
100845402 GGTTTAA
1 GGTTTAA
100845409 GGTTTAA
1 GGTTTAA
**
100845416 TATTTAA
1 GGTTTAA
* *
100845423 GGTCTAT
1 GGTTTAA
100845430 GGTTTAA
1 GGTTTAA
*
100845437 GGTTTTAT
1 GG-TTTAA
100845445 GGTTTAA
1 GGTTTAA
100845452 GGTTTAA
1 GGTTTAA
100845459 TGGCCATGGG
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
7 33 0.85
8 6 0.15
ACGTcount: A:0.26, C:0.02, G:0.25, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:100845447 original size:15 final size:15
Alignment explanation
Indices: 100845402--100845461 Score: 79
Period size: 14 Copynumber: 4.1 Consensus size: 15
100845392 TTTATTTTGG
100845402 GGTTTAAGGTTTAAT
1 GGTTTAAGGTTTAAT
* *
100845417 -ATTTAAGGTCT-AT
1 GGTTTAAGGTTTAAT
*
100845430 GGTTTAAGGTTTTAT
1 GGTTTAAGGTTTAAT
100845445 GGTTTAAGGTTTAAT
1 GGTTTAAGGTTTAAT
100845460 GG
1 GG
100845462 CCATGGGTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
13 2 0.05
14 18 0.47
15 18 0.47
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.47
Consensus pattern (15 bp):
GGTTTAAGGTTTAAT
Found at i:100846200 original size:3 final size:3
Alignment explanation
Indices: 100846192--100846253 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
100846182 CATTTTAGTA
100846192 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
100846240 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
100846254 AAGAGAAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:100850674 original size:19 final size:19
Alignment explanation
Indices: 100850651--100850697 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
100850641 ATTTAATCTA
*
100850651 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
100850669 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
100850689 ATTTTTATT
1 ATTTTTATT
100850698 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:100850829 original size:19 final size:19
Alignment explanation
Indices: 100850783--100850841 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
100850773 ATGAATTTTA
*
100850783 ATTTTTTTTATATTTTTCATG
1 ATTTTTTTAATA-TTTT-ATG
* *
100850804 ATCTTTTTAATATTTTATT
1 ATTTTTTTAATATTTTATG
100850823 ATTTTTTTAA-ATTTTATG
1 ATTTTTTTAATATTTTATG
100850841 A
1 A
100850842 CCTTTAGCAG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
18 8 0.24
19 11 0.33
20 4 0.12
21 10 0.30
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.68
Consensus pattern (19 bp):
ATTTTTTTAATATTTTATG
Found at i:100850899 original size:43 final size:43
Alignment explanation
Indices: 100850838--100850942 Score: 183
Period size: 43 Copynumber: 2.4 Consensus size: 43
100850828 TTTAAATTTT
* *
100850838 ATGACCTTTAGCAGCGTTTGTGGGAAAAACGCCGCTAAAGGCC
1 ATGACCTATAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGCC
*
100850881 ATGACCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCC
1 ATGACCTATAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGCC
100850924 ATGACCTATAGCGGCGTTT
1 ATGACCTATAGCGGCGTTT
100850943 TTTCAAATAA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.22
Consensus pattern (43 bp):
ATGACCTATAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGCC
Found at i:100854131 original size:3 final size:3
Alignment explanation
Indices: 100854125--100854154 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
100854115 AAAAAAAAAA
100854125 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
100854155 GAAAATAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:100863485 original size:18 final size:17
Alignment explanation
Indices: 100863443--100863485 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
100863433 TTTTTTAGTT
*
100863443 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
* *
100863460 TGTTATTTTTATATATTA
1 TATAATTTTT-TATATTA
100863478 TATAATTT
1 TATAATTT
100863486 AGAACACATT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:100864220 original size:19 final size:19
Alignment explanation
Indices: 100864182--100864222 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
100864172 ACACCAGCAA
* **
100864182 AAAAATTAAATTTTTTAAG
1 AAAAATAAAATTTTAAAAG
100864201 AAAAATAAAATTTTAAAAG
1 AAAAATAAAATTTTAAAAG
100864220 AAA
1 AAA
100864223 TATTTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AAAAATAAAATTTTAAAAG
Found at i:100864370 original size:21 final size:17
Alignment explanation
Indices: 100864317--100864366 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 17
100864307 ATTAAAAAAT
100864317 ATTTTAAAAAATTATAA
1 ATTTTAAAAAATTATAA
100864334 ATTTGTAAAAACATTATTAA
1 ATTT-TAAAAA-ATTA-TAA
*
100864354 AATTTATAAAAAT
1 ATTTTA-AAAAAT
100864367 ATTAAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 8 0.29
20 10 0.36
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
ATTTTAAAAAATTATAA
Found at i:100864880 original size:12 final size:13
Alignment explanation
Indices: 100864852--100864888 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
100864842 TAAAACATTA
*
100864852 ATTATAAATTGTT
1 ATTATATATTGTT
100864865 ATTATATATT-TT
1 ATTATATATTGTT
100864877 ATTATATATTGT
1 ATTATATATTGT
100864889 CTAAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (13 bp):
ATTATATATTGTT
Found at i:100866637 original size:12 final size:11
Alignment explanation
Indices: 100866590--100866697 Score: 51
Period size: 12 Copynumber: 9.3 Consensus size: 11
100866580 AAGCATACCT
*
100866590 TATAATATTAGA
1 TATAATA-TATA
100866602 TATATATATATA
1 TATA-ATATATA
*
100866614 TATATATCTATA
1 TATA-ATATATA
100866626 TATAATAGTATAA
1 TATAATA-TAT-A
* * *
100866639 AAGAAGA-ATA
1 TATAATATATA
100866649 TGACTAATGATAT-
1 T-A-TAAT-ATATA
*
100866662 TAAAATATATA
1 TATAATATATA
100866673 TAATAATATATA
1 T-ATAATATATA
*
100866685 TAAAATATA-A
1 TATAATATATA
100866695 TAT
1 TAT
100866698 TAAGAACTTA
Statistics
Matches: 74, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
10 8 0.11
11 16 0.22
12 38 0.51
13 10 0.14
14 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.39
Consensus pattern (11 bp):
TATAATATATA
Found at i:100866909 original size:13 final size:14
Alignment explanation
Indices: 100866891--100866921 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
100866881 ATGTACGAAT
100866891 ATATACATATA-TA
1 ATATACATATATTA
100866904 ATATACATATATTA
1 ATATACATATATTA
100866918 ATAT
1 ATAT
100866922 TAATAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:100867021 original size:12 final size:12
Alignment explanation
Indices: 100866983--100867022 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
100866973 TGAAAATAAT
100866983 TAAT-ATATTAA
1 TAATAATATTAA
* *
100866994 TAAAAATACTAA
1 TAATAATATTAA
100867006 TAATAATATTAA
1 TAATAATATTAA
100867018 TAATA
1 TAATA
100867023 CGTAAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 3 0.12
12 21 0.88
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (12 bp):
TAATAATATTAA
Found at i:100868170 original size:16 final size:16
Alignment explanation
Indices: 100868149--100868180 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
100868139 TTTTGTGTAA
*
100868149 TGGGCTGTTAGTTTAG
1 TGGGCTGGTAGTTTAG
100868165 TGGGCTGGTAGTTTAG
1 TGGGCTGGTAGTTTAG
100868181 GTTATTGGGC
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:0.12, C:0.06, G:0.41, T:0.41
Consensus pattern (16 bp):
TGGGCTGGTAGTTTAG
Found at i:100868720 original size:44 final size:44
Alignment explanation
Indices: 100868667--100868751 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
100868657 CTCGATTAGT
*
100868667 TCCATTGCAACTTCAGGGAGTC-AAGACTTGCAACTTGGACCCGC
1 TCCATTGCAACTTCAGGGAGACGAA-ACTTGCAACTTGGACCCGC
* *
100868711 TCCATTGCAACTTCAGGGGGACGAAACTTGCAACTTTGACC
1 TCCATTGCAACTTCAGGGAGACGAAACTTGCAACTTGGACC
100868752 TACTTTACTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 35 0.95
45 2 0.05
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (44 bp):
TCCATTGCAACTTCAGGGAGACGAAACTTGCAACTTGGACCCGC
Found at i:100868841 original size:55 final size:55
Alignment explanation
Indices: 100868766--100868917 Score: 261
Period size: 55 Copynumber: 2.8 Consensus size: 55
100868756 TTACTACAAC
*
100868766 TCTCACAATATGAGTTCACTTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACT
1 TCTCGCAATATGAGTTCACTTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACT
100868821 TCTCGCAATATGAGTTCACTTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACT
1 TCTCGCAATATGAGTTCACTTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACT
* *
100868876 TCTCGCAATATGAGTTGA-TTTTTGAAAAACATAAATTGAAAA
1 TCTCGCAATATGAGTTCACTTTTTGAAAAACAGAAATT-AAAA
100868918 CAGAAATTGA
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
54 18 0.19
55 75 0.81
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (55 bp):
TCTCGCAATATGAGTTCACTTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACT
Found at i:100868916 original size:14 final size:14
Alignment explanation
Indices: 100868897--100868929 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
100868887 GAGTTGATTT
*
100868897 TTGAAAAACATAAA
1 TTGAAAAACAGAAA
100868911 TTG-AAAACAGAAA
1 TTGAAAAACAGAAA
100868924 TTGAAA
1 TTGAAA
100868930 TTACCTCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.61, C:0.06, G:0.12, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:100869011 original size:86 final size:85
Alignment explanation
Indices: 100868866--100869098 Score: 335
Period size: 86 Copynumber: 2.7 Consensus size: 85
100868856 ATTAAAAGGT
* * * *
100868866 TCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAAAACAGAAATTGAAAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATT-AAAACAGAAATTGAAAA
*
100868931 TACCTCAACGTGCCCCGAGGC
65 TACCTCAACGTGCCACGAGGC
* *
100868952 TCAACTCACCTCTCGCAATATGAGTTGATTTTGGAAAAATAGAAATTAAAGACAAAAATTGAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA-ACAGAAATTGAAAA
* * *
100869017 TACCTCAGCGTGGCATGAGGC
65 TACCTCAACGTGCCACGAGGC
100869038 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAT-G-AATTAAAACAGAAATTGAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ATAGAAATTAAAACAGAAATTGAA
100869099 GAACAGAAAT
Statistics
Matches: 133, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
84 11 0.08
85 10 0.08
86 110 0.83
87 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (85 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAACAGAAATTGAAAAT
ACCTCAACGTGCCACGAGGC
Found at i:100869105 original size:14 final size:14
Alignment explanation
Indices: 100869086--100869112 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
100869076 CATGAATTAA
100869086 AACAGAAATTGAAG
1 AACAGAAATTGAAG
100869100 AACAGAAATTGAA
1 AACAGAAATTGAA
100869113 AATACCTCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.19, T:0.15
Consensus pattern (14 bp):
AACAGAAATTGAAG
Found at i:100869255 original size:177 final size:178
Alignment explanation
Indices: 100868901--100869277 Score: 569
Period size: 177 Copynumber: 2.1 Consensus size: 178
100868891 TGATTTTTGA
* * *
100868901 AAAACATAAATTGAAAACAGAAATTGAAATTACCTCAACGTGCCCCGAGGCTCAACTCACCTCTC
1 AAAACAGAAATTGAAAACAGAAATTGAAAATACCTCAACGCGCCCCGAGGCTCAACTCACCTCTC
*
100868966 GCAATATGAGTTGATTTTGGAAAAATAGAAATTAAAGACAAAAATTGAAAATACCTCAGCGTGGC
66 GCAATATGAGTTGATTTTGGAAAAACAGAAATT--AG---AAAATTGAAAATACCTCAGCGTGGC
100869031 ATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATT
126 ATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATT
* * *
100869084 AAAACAGAAATTGAAGAACAGAAATTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCT
1 AAAACAGAAATTGAA-AACAGAAATTGAAAATACCTCAACGCGCCCCGAGGCTCAACTCACCTCT
* * * * * *
100869149 CGCAATATGAGTTGATTTTTGAAAAGCAGAAATT-G-AAATTGAAATTATCTCAGCGTGTCCTGA
65 CGCAATATGAGTTGATTTTGGAAAAACAGAAATTAGAAAATTGAAAATACCTCAGCGTGGCATGA
100869212 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATT
130 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATT
100869261 AAAACAGAAATTGAAAA
1 AAAACAGAAATTGAAAA
100869278 TACCTCAGCG
Statistics
Matches: 180, Mismatches: 13, Indels: 9
0.89 0.06 0.04
Matches are distributed among these distances:
176 2 0.01
177 88 0.49
181 1 0.01
183 14 0.08
184 75 0.42
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (178 bp):
AAAACAGAAATTGAAAACAGAAATTGAAAATACCTCAACGCGCCCCGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTGGAAAAACAGAAATTAGAAAATTGAAAATACCTCAGCGTGGCATGAG
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATT
Found at i:100869319 original size:84 final size:83
Alignment explanation
Indices: 100869100--100869347 Score: 366
Period size: 79 Copynumber: 3.0 Consensus size: 83
100869090 GAAATTGAAG
*
100869100 AACAGAAATTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
100869165 TTTTGAAAAGCAGAAATT
66 TTTTGAAAAGCAGAAATT
* *
100869183 ----GAAATTGAAATTATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
100869244 TTTTGAAAA-CATG-AATT
66 TTTTGAAAAGCA-GAAATT
*
100869261 AAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 --AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
100869326 A-TTTTGAAAAAGTAGAAATT
64 ATTTTTG-AAAAGCAGAAATT
100869346 AA
1 AA
100869348 AAGGTTCAAC
Statistics
Matches: 148, Mismatches: 7, Indels: 20
0.85 0.04 0.11
Matches are distributed among these distances:
78 6 0.04
79 68 0.46
83 7 0.05
84 62 0.42
85 5 0.03
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (83 bp):
AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAAAAGCAGAAATT
Found at i:100869444 original size:71 final size:72
Alignment explanation
Indices: 100869353--100869548 Score: 216
Period size: 74 Copynumber: 2.7 Consensus size: 72
100869343 ATTAAAAGGT
* * * * * * *
100869353 TCAACCCACCTCTCGTAATATGAGTTGATTTTTGAAA-CATAAATTGAAATTACTTCAACGTGTC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGCAGAAATTAAAAATACCTCAACGTGCC
*
100869417 TTGAGGC
66 CTGAGGC
** ** *
100869424 TCAACTCACCTCTCGCAATATGAGTTGATGAACTAAAAAGCAGAAATTAAAAATACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGAT--TTTTGAAAGCAGAAATTAAAAATACCTCAACGTG
100869489 CCCTGAGGC
64 CCCTGAGGC
*
100869498 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAAGTAGAAATTAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAAGCAGAAATTAAAA
100869549 GGTTCAACCC
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
71 28 0.27
73 19 0.19
74 55 0.54
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGCAGAAATTAAAAATACCTCAACGTGCC
CTGAGGC
Found at i:100869534 original size:199 final size:200
Alignment explanation
Indices: 100869136--100869734 Score: 923
Period size: 199 Copynumber: 2.9 Consensus size: 200
100869126 GTCCTGAGGC
* * *
100869136 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAATTGAAATTATCTCA
1 TCAACCCACCTCTCGTAATATGAGTTGATTTTTG-AAA-C----A-T-AAATTGAAATTACCTCA
* *
100869201 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTAAAA-
58 ACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TG--AAC-T-AA--AAAAG
* *
100869265 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
113 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
100869330 TGAAAAAGTAGAAATTAAAAGGT
178 TGAAAAAGTAGAAATTAAAAGGT
*
100869353 TCAACCCACCTCTCGTAATATGAGTTGATTTTTGAAACATAAATTGAAATTACTTCAACGTGTCT
1 TCAACCCACCTCTCGTAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
*
100869418 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATGAACT-AAAAAGCAGAAATTAAAAATACCT
66 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATGAACTAAAAAAGCAGAAATTGAAAATACCT
100869482 CAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAA
131 CAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAA
100869547 AAGGT
196 AAGGT
100869552 TCAACCCACCTCTCGTAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
1 TCAACCCACCTCTCGTAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
100869617 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATGAACTAAAAAAGCAGAAATTGAAAATACCT
66 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATGAACTAAAAAAGCAGAAATTGAAAATACCT
*
100869682 CAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAA
131 CAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAA
100869735 CATAAATTGA
Statistics
Matches: 367, Mismatches: 12, Indels: 22
0.92 0.03 0.05
Matches are distributed among these distances:
198 4 0.01
199 189 0.51
200 67 0.18
201 8 0.02
202 1 0.00
203 3 0.01
205 2 0.01
209 55 0.15
210 1 0.00
211 1 0.00
215 1 0.00
216 3 0.01
217 32 0.09
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (200 bp):
TCAACCCACCTCTCGTAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATGAACTAAAAAAGCAGAAATTGAAAATACCT
CAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAA
AAGGT
Found at i:100869643 original size:71 final size:71
Alignment explanation
Indices: 100869552--100869800 Score: 336
Period size: 71 Copynumber: 3.5 Consensus size: 71
100869542 ATTAAAAGGT
* *
100869552 TCAACCCACCTCTCGTAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
100869617 TGAGGC
66 TGAGGC
* *** * * *
100869623 TCAACTCACCTCTCGCAATATGAGTTGATGAACTAAAAAAGCAGAAATTGAAAATACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGAT---TTTTGAAA-CATAAATTGAAATTACCTCAACGT
* *
100869688 GCCCTGAGGC
62 GTCTTGAGGC
*
100869698 TCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
100869763 TGAGGC
66 TGAGGC
* *
100869769 TCAACTCACCTCTCGCAATATGGGCTGATTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTT
100869801 CTTGGAAAAC
Statistics
Matches: 150, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
71 85 0.57
72 4 0.03
74 4 0.03
75 57 0.38
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (71 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
TGAGGC
Found at i:100874281 original size:18 final size:17
Alignment explanation
Indices: 100874239--100874281 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
100874229 TTTTTTAGTT
*
100874239 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
* *
100874256 TGTTATTTTTATATATTA
1 TATAATTTTT-TATATTA
100874274 TATAATTT
1 TATAATTT
100874282 AGAACACATT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:100875016 original size:19 final size:19
Alignment explanation
Indices: 100874978--100875018 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
100874968 ACACCAGCAA
* **
100874978 AAAAATTAAATTTTTTAAG
1 AAAAATAAAATTTTAAAAG
100874997 AAAAATAAAATTTTAAAAG
1 AAAAATAAAATTTTAAAAG
100875016 AAA
1 AAA
100875019 TATTTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AAAAATAAAATTTTAAAAG
Found at i:100875166 original size:21 final size:17
Alignment explanation
Indices: 100875113--100875162 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 17
100875103 ATTAAAAAAT
100875113 ATTTTAAAAAATTATAA
1 ATTTTAAAAAATTATAA
100875130 ATTTGTAAAAACATTATTAA
1 ATTT-TAAAAA-ATTA-TAA
*
100875150 AATTTATAAAAAT
1 ATTTTA-AAAAAT
100875163 ATTAAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 8 0.29
20 10 0.36
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
ATTTTAAAAAATTATAA
Found at i:100875677 original size:12 final size:13
Alignment explanation
Indices: 100875649--100875685 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
100875639 TAAAACATTA
*
100875649 ATTATAAATTGTT
1 ATTATATATTGTT
100875662 ATTATATATT-TT
1 ATTATATATTGTT
100875674 ATTATATATTGT
1 ATTATATATTGT
100875686 CTAAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (13 bp):
ATTATATATTGTT
Found at i:100876321 original size:19 final size:20
Alignment explanation
Indices: 100876284--100876335 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
100876274 TTATTTAACA
* *
100876284 TTTTTATCAATTTTAATAATT
1 TTTTTA-CAAATTTAATAAAT
100876305 TTTTTACAAATTT-ATAAAT
1 TTTTTACAAATTTAATAAAT
*
100876324 TTTTTAAAAATT
1 TTTTTACAAATT
100876336 AAAATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 6 0.21
21 6 0.21
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTACAAATTTAATAAAT
Found at i:100877657 original size:15 final size:15
Alignment explanation
Indices: 100877635--100877672 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
100877625 TTACACTTTT
100877635 AAAT-ATTATTATAA
1 AAATAATTATTATAA
*
100877649 AAATAATTATTTTAA
1 AAATAATTATTATAA
*
100877664 AATTAATTA
1 AAATAATTA
100877673 ATTAATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATAATTATTATAA
Found at i:100882914 original size:50 final size:50
Alignment explanation
Indices: 100882839--100883015 Score: 248
Period size: 50 Copynumber: 3.5 Consensus size: 50
100882829 CCATGGAAAC
100882839 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
100882889 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
100882939 AAGTGATAAATGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
100882989 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
100883016 CTGATCAGTG
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 88 0.79
51 23 0.21
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:100883031 original size:31 final size:31
Alignment explanation
Indices: 100882993--100883225 Score: 358
Period size: 31 Copynumber: 7.5 Consensus size: 31
100882983 AAATGACAAC
100882993 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
100883024 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
100883055 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
100883086 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
100883117 TGAAAAGTGGTAGTTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
100883148 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* * **
100883179 TGAAAAATGATAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
100883210 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
100883226 TGACTACAAG
Statistics
Matches: 184, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 184 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:100883332 original size:47 final size:48
Alignment explanation
Indices: 100883263--100883388 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 48
100883253 CAAGTGATTT
* *
100883263 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATG-CTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
** * *
100883310 CTGTATAAGACCATATCTGGGATATAACATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
100883358 C-GTGTAAGACCATAGCTGGGCTATGGCATCA
1 CTGTATAAGACCATATCTGGGATATGGCATCA
100883389 TTATGTAAAG
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
47 64 0.96
48 3 0.04
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (48 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
Found at i:100886237 original size:16 final size:17
Alignment explanation
Indices: 100886205--100886237 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
100886195 TACTATGATC
100886205 TTTTAAGTTATATAAAA
1 TTTTAAGTTATATAAAA
*
100886222 TTTTAATTTA-ATAAAA
1 TTTTAAGTTATATAAAA
100886238 GAGAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
TTTTAAGTTATATAAAA
Found at i:100888982 original size:27 final size:27
Alignment explanation
Indices: 100888923--100888987 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
100888913 CTAAACTTAT
*
100888923 TTTTTTAAATATTTTATATATTTAATT-
1 TTTTTTAAATA-TTCATATATTTAATTA
100888950 TTTTTTAAATA-TCATAT-TTTATATTA
1 TTTTTTAAATATTCATATATTTA-ATTA
100888976 TTATTTTGAAAT
1 TT-TTTT-AAAT
100888988 TAAAAGTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
24 4 0.12
25 8 0.24
26 2 0.06
27 15 0.45
28 4 0.12
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (27 bp):
TTTTTTAAATATTCATATATTTAATTA
Found at i:100900753 original size:16 final size:17
Alignment explanation
Indices: 100900732--100900768 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
100900722 CATGTTAGCT
100900732 AAAATAAAAA-ATTCAA
1 AAAATAAAAATATTCAA
100900748 AAAATAAAAATTATTCAA
1 AAAATAAAAA-TATTCAA
100900766 AAA
1 AAA
100900769 TTTTAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
18 9 0.47
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAATAAAAATATTCAA
Found at i:100901400 original size:21 final size:20
Alignment explanation
Indices: 100901371--100901414 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
100901361 ATATTATAAG
100901371 TTTTGATAATTTTTATAAATT
1 TTTTGATAATTTTTAT-AATT
*
100901392 TTTTTATAATTTTTATAATT
1 TTTTGATAATTTTTATAATT
100901412 TTT
1 TTT
100901415 AAAATACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTGATAATTTTTATAATT
Found at i:100901413 original size:8 final size:9
Alignment explanation
Indices: 100901324--100901415 Score: 78
Period size: 9 Copynumber: 9.6 Consensus size: 9
100901314 GTGTTGTAAC
*
100901324 TTTTATGAT
1 TTTTATAAT
100901333 TTTTATAAT
1 TTTTATAAT
*
100901342 TTTTAAATAT
1 TTTTATA-AT
100901352 TTTTA-AAT
1 TTTTATAAT
*
100901360 CATATTATAAGT
1 --TTTTATAA-T
*
100901372 TTTGATAAT
1 TTTTATAAT
100901381 TTTTATAAATTT
1 TTTTAT-AA--T
100901393 TTTTATAAT
1 TTTTATAAT
100901402 TTTTATAAT
1 TTTTATAAT
100901411 TTTTA
1 TTTTA
100901416 AAATACTAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
8 2 0.03
9 36 0.52
10 19 0.28
11 4 0.06
12 8 0.12
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:100904878 original size:33 final size:33
Alignment explanation
Indices: 100904836--100904911 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
100904826 CCTATACTAC
100904836 TGTCTTCGTCACCGAATCTAGTCCCTTTACCAA
1 TGTCTTCGTCACCGAATCTAGTCCCTTTACCAA
* *
100904869 TGTCTTCGTCATCGAATCTTGTCCCTTTACCAA
1 TGTCTTCGTCACCGAATCTAGTCCCTTTACCAA
100904902 TGTCTTCGTC
1 TGTCTTCGTC
100904912 TTCTGATCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.17, C:0.32, G:0.13, T:0.38
Consensus pattern (33 bp):
TGTCTTCGTCACCGAATCTAGTCCCTTTACCAA
Found at i:100905658 original size:12 final size:12
Alignment explanation
Indices: 100905641--100905667 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
100905631 AAAATCTAGA
100905641 AATATATATTGT
1 AATATATATTGT
100905653 AATATATATTGT
1 AATATATATTGT
100905665 AAT
1 AAT
100905668 CTTGCTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
AATATATATTGT
Found at i:100908618 original size:3 final size:3
Alignment explanation
Indices: 100908612--100908644 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
100908602 TTTTTTTGTT
100908612 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
100908645 CAGAAGTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:100920611 original size:61 final size:60
Alignment explanation
Indices: 100920498--100920630 Score: 164
Period size: 61 Copynumber: 2.2 Consensus size: 60
100920488 TAAATGTTGA
*
100920498 ATTTGTATTAATATTATAATTATTTAACTTTATTTTTTTAACTAATTAATATTTAGATACT
1 ATTTGTATTAATATTATAATTATTTAACTTTA-TTTTTTAACTAACTAATATTTAGATACT
* *
100920559 ATTTGTACTTATATATTGTAATTA-TTAACCTTTA-TTTTT-ACTAAACTAATATTTAGATATT
1 ATTTGTA-TTA-ATATTATAATTATTTAA-CTTTATTTTTTAACT-AACTAATATTTAGATACT
100920620 ATTTTGTATTA
1 A-TTTGTATTA
100920631 GTTTATCGAA
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
60 3 0.05
61 32 0.50
62 13 0.20
63 16 0.25
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.55
Consensus pattern (60 bp):
ATTTGTATTAATATTATAATTATTTAACTTTATTTTTTAACTAACTAATATTTAGATACT
Found at i:100922388 original size:19 final size:19
Alignment explanation
Indices: 100922364--100922401 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
100922354 GTAATTGAAC
*
100922364 TTGAAAATTGGACCTGAGA
1 TTGAAAATTGGACCCGAGA
100922383 TTGAAAATTGGACCCGAGA
1 TTGAAAATTGGACCCGAGA
100922402 ACCAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (19 bp):
TTGAAAATTGGACCCGAGA
Found at i:100925949 original size:31 final size:30
Alignment explanation
Indices: 100925898--100926029 Score: 135
Period size: 31 Copynumber: 4.3 Consensus size: 30
100925888 AAGATAGTAT
* *
100925898 TATTTTAATAAATTTAATATTTATCTAGATA
1 TATTTTAATTAATTTAATATTTATAT-GATA
* *
100925929 GTATTTT-ATTAATTTTATATTAATATGATA
1 -TATTTTAATTAATTTAATATTTATATGATA
*
100925959 TATTTTAATTTAATTTAATATTTATATTGAAAA
1 TATTTTAA-TTAATTTAATATTTATA-TG-ATA
*
100925992 TATTTT-ATTAATTTAATATTAATATGAT-
1 TATTTTAATTAATTTAATATTTATATGATA
100926020 TAATTTTAAT
1 T-ATTTTAAT
100926030 CCTAGTTCAC
Statistics
Matches: 85, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
28 1 0.01
29 12 0.14
30 9 0.11
31 46 0.54
32 9 0.11
33 8 0.09
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (30 bp):
TATTTTAATTAATTTAATATTTATATGATA
Found at i:100925951 original size:11 final size:12
Alignment explanation
Indices: 100925930--100926016 Score: 51
Period size: 11 Copynumber: 7.2 Consensus size: 12
100925920 ATCTAGATAG
100925930 TATTT-TATTAA
1 TATTTATATTAA
100925941 T-TTTATATTAA
1 TATTTATATTAA
* *
100925952 TATGATATATT-T
1 TAT-TTATATTAA
100925964 TAATTTA-ATTTAA
1 T-ATTTATA-TTAA
100925977 TATTTATATTGAAAA
1 TATTTATATT---AA
100925992 TATTT-TATTAA
1 TATTTATATTAA
*
100926003 T-TTAATATTAA
1 TATTTATATTAA
100926014 TAT
1 TAT
100926017 GATTAATTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 23
0.68 0.06 0.26
Matches are distributed among these distances:
10 5 0.08
11 19 0.32
12 14 0.24
13 10 0.17
14 4 0.07
15 7 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (12 bp):
TATTTATATTAA
Found at i:100925996 original size:62 final size:61
Alignment explanation
Indices: 100925896--100926029 Score: 189
Period size: 62 Copynumber: 2.2 Consensus size: 61
100925886 CAAAGATAGT
* * * *
100925896 ATTATTTTAA-TAAATTTAATATTTATCTAGATAGTATTTTATTAATTTTATATTAATATG
1 ATTATTTTAATTAAATTTAATATTTATATAGAAAATATTTTATTAATTTAATATTAATATG
* *
100925956 ATATATTTTAATTTAATTTAATATTTATATTGAAAATATTTTATTAATTTAATATTAATATG
1 AT-TATTTTAATTAAATTTAATATTTATATAGAAAATATTTTATTAATTTAATATTAATATG
100926018 ATTAATTTTAAT
1 ATT-ATTTTAAT
100926030 CCTAGTTCAC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
60 2 0.03
61 9 0.14
62 54 0.83
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (61 bp):
ATTATTTTAATTAAATTTAATATTTATATAGAAAATATTTTATTAATTTAATATTAATATG
Found at i:100926169 original size:26 final size:26
Alignment explanation
Indices: 100926117--100926166 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
100926107 AGTTATAAAG
100926117 AGAAAATTCTCTAAAGAAATTATTTC
1 AGAAAATTCTCTAAAGAAATTATTTC
*
100926143 AGAAAATT-TCTAAAGATATTATTT
1 AGAAAATTCTCTAAAGAAATTATTT
100926167 TCATTTACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (26 bp):
AGAAAATTCTCTAAAGAAATTATTTC
Found at i:100937905 original size:20 final size:20
Alignment explanation
Indices: 100937869--100937906 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
100937859 CTCAAACATT
*
100937869 GAATCTTGGATCGAAACCTC
1 GAATCTTGAATCGAAACCTC
*
100937889 GAATCTTGAATCTAAACC
1 GAATCTTGAATCGAAACC
100937907 CAAACCTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (20 bp):
GAATCTTGAATCGAAACCTC
Found at i:100938068 original size:21 final size:22
Alignment explanation
Indices: 100938035--100938078 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
100938025 TCAGGATTTA
* *
100938035 GAATTCTAGGTTAAAGG-TTTG
1 GAATTCAAAGTTAAAGGCTTTG
*
100938056 GAATTCAAAGTTAAGGGCTTTG
1 GAATTCAAAGTTAAAGGCTTTG
100938078 G
1 G
100938079 GTAAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.34
Consensus pattern (22 bp):
GAATTCAAAGTTAAAGGCTTTG
Found at i:100938344 original size:44 final size:43
Alignment explanation
Indices: 100938254--100938336 Score: 114
Period size: 45 Copynumber: 1.9 Consensus size: 43
100938244 AATATTACTA
* *
100938254 AATTCACATTTAAAAATAATTATAATTTAATAAAAGTTGAAAT
1 AATTCACATTTAAAAATAAATATAAGTTAATAAAAGTTGAAAT
*
100938297 AATTACACATTTAAAAAATAAATATTAGTTAA-AAAAGTTG
1 AATT-CACATTT-AAAAATAAATATAAGTTAATAAAAGTTG
100938337 TGATAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
43 4 0.11
44 15 0.43
45 16 0.46
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (43 bp):
AATTCACATTTAAAAATAAATATAAGTTAATAAAAGTTGAAAT
Found at i:100939701 original size:19 final size:19
Alignment explanation
Indices: 100939677--100939715 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
100939667 GTTAATTTTG
100939677 TTATTATTTTAAAGGCATT
1 TTATTATTTTAAAGGCATT
*
100939696 TTATTATTTTAGAGGCATT
1 TTATTATTTTAAAGGCATT
100939715 T
1 T
100939716 GCTTGTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.13, T:0.54
Consensus pattern (19 bp):
TTATTATTTTAAAGGCATT
Found at i:100939835 original size:18 final size:18
Alignment explanation
Indices: 100939799--100939836 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
100939789 GGAATATTTA
*
100939799 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTATAGTAT
100939817 TTTTGATGTCTTATA-TAT
1 TTTTGATGT-TTATAGTAT
100939835 TT
1 TT
100939837 AAAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.18, C:0.03, G:0.13, T:0.66
Consensus pattern (18 bp):
TTTTGATGTTTATAGTAT
Found at i:100948259 original size:42 final size:42
Alignment explanation
Indices: 100948212--100948291 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
100948202 TATTCAACTC
100948212 GAAAAAGAAAGATTTGAATTTAACCTGAAAAGAAGACAAGTT
1 GAAAAAGAAAGATTTGAATTTAACCTGAAAAGAAGACAAGTT
100948254 GAAAAAGAAAGATTTGAATTTAACCTGAAAAGAAGACA
1 GAAAAAGAAAGATTTGAATTTAACCTGAAAAGAAGACA
100948292 CCAAATAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.54, C:0.07, G:0.19, T:0.20
Consensus pattern (42 bp):
GAAAAAGAAAGATTTGAATTTAACCTGAAAAGAAGACAAGTT
Found at i:100954199 original size:39 final size:39
Alignment explanation
Indices: 100954156--100954259 Score: 154
Period size: 39 Copynumber: 2.7 Consensus size: 39
100954146 TCATGATCTG
** * *
100954156 AAGCCCGAAATCTAGCTGAAGCACATAAGTGCTAAATGA
1 AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGA
* *
100954195 AAGCCCGGAGGCTAACTGAAGCACATAAGTGCTAAACGG
1 AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGA
100954234 AAGCCCGAAGGCTAACTGAAGCACAT
1 AAGCCCGAAGGCTAACTGAAGCACAT
100954260 CAGAGCTGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.14
Consensus pattern (39 bp):
AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGA
Found at i:100954237 original size:21 final size:21
Alignment explanation
Indices: 100954173--100954237 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
100954163 AAATCTAGCT
*
100954173 GAAGCACATAAGTGCTAAATG
1 GAAGCACATAAGTGCTAAACG
* *** *
100954194 AAAGC-CCGGAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
100954212 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
100954233 GAAGC
1 GAAGC
100954238 CCGAAGGCTA
Statistics
Matches: 30, Mismatches: 11, Indels: 6
0.64 0.23 0.13
Matches are distributed among these distances:
18 6 0.20
19 6 0.20
20 6 0.20
21 12 0.40
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.14
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:100958836 original size:20 final size:20
Alignment explanation
Indices: 100958813--100958852 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
100958803 CCTTGAAAAA
100958813 GGTACCGATA-CTTTATGATT
1 GGTACCGATACCTTTA-GATT
*
100958833 GGTATCGATACCTTTAGATT
1 GGTACCGATACCTTTAGATT
100958853 TAATTCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (20 bp):
GGTACCGATACCTTTAGATT
Found at i:100971512 original size:40 final size:40
Alignment explanation
Indices: 100971457--100971648 Score: 287
Period size: 40 Copynumber: 4.8 Consensus size: 40
100971447 TGGATGATAA
* * * *
100971457 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
100971497 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
100971537 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
100971577 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
100971617 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
100971649 AGCTATATCC
Statistics
Matches: 140, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 138 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:100977704 original size:33 final size:33
Alignment explanation
Indices: 100977659--100977731 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
100977649 AACCTCAGCT
* * *
100977659 ATTTTGGTCGTGTG-GGCCACACGGGCAAGGCCA
1 ATTTGGGTCGTGTGCGCCCACACAGGCAA-GCCA
100977692 ATTTGGGTCGTGTGCGCCCACACAGGCAAGCCA
1 ATTTGGGTCGTGTGCGCCCACACAGGCAAGCCA
*
100977725 TTTTGGG
1 ATTTGGG
100977732 GATGTGTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 23 0.66
34 12 0.34
ACGTcount: A:0.18, C:0.25, G:0.34, T:0.23
Consensus pattern (33 bp):
ATTTGGGTCGTGTGCGCCCACACAGGCAAGCCA
Found at i:100981124 original size:33 final size:33
Alignment explanation
Indices: 100981065--100981127 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
100981055 ATTGCCTTGC
*
100981065 TTTGCAAGTATATGTGTATATGTTTATTATGAG
1 TTTGCAAGTATATGTGTATATATTTATTATGAG
* *
100981098 TTTGCAAGTATGT-TCGTATGTATTTATTAT
1 TTTGCAAGTATATGT-GTATATATTTATTAT
100981128 CACTCATATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 1 0.04
33 25 0.96
ACGTcount: A:0.25, C:0.05, G:0.19, T:0.51
Consensus pattern (33 bp):
TTTGCAAGTATATGTGTATATATTTATTATGAG
Found at i:100983357 original size:5 final size:5
Alignment explanation
Indices: 100983347--100983387 Score: 73
Period size: 5 Copynumber: 8.2 Consensus size: 5
100983337 ACATGTTTTA
*
100983347 AACAT AACAT AACAT AACAT AACAT AACAT AACAT CACAT A
1 AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT A
100983388 TACTCAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.59, C:0.22, G:0.00, T:0.20
Consensus pattern (5 bp):
AACAT
Found at i:100984133 original size:42 final size:42
Alignment explanation
Indices: 100984004--100984141 Score: 123
Period size: 42 Copynumber: 3.3 Consensus size: 42
100983994 GCACATAAGT
* * * ** * * *
100984004 GCTAAACAGAAACCCATGAGGGTTAAACGGAAACTCATAAGA
1 GCTAAACGGAAACCCATAAGAGTTAAATAGAAGCTTAAAAGA
* *
100984046 GCTGAACGGAAACCCATAAGAGTTAAATAGAAGCTTAAAATA
1 GCTAAACGGAAACCCATAAGAGTTAAATAGAAGCTTAAAAGA
* * * * ***
100984088 GCTAAATGGAAACTCATATGAGTTGAATAGAAGCTTGTGAGA
1 GCTAAACGGAAACCCATAAGAGTTAAATAGAAGCTTAAAAGA
100984130 GCTAAACGGAAA
1 GCTAAACGGAAA
100984142 GTAAACATGA
Statistics
Matches: 76, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.19
Consensus pattern (42 bp):
GCTAAACGGAAACCCATAAGAGTTAAATAGAAGCTTAAAAGA
Found at i:100999301 original size:35 final size:35
Alignment explanation
Indices: 100999262--100999333 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
100999252 CATCTCCAGA
*
100999262 GCTTGGCAAATATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
* * *
100999297 GCTTGGCAAATATGGAAGGGGATTTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
100999332 GC
1 GC
100999334 GATCCTAGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
Found at i:100999550 original size:12 final size:12
Alignment explanation
Indices: 100999533--100999565 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
100999523 CATTCACTCA
100999533 AACTTTTCTCTC
1 AACTTTTCTCTC
100999545 AACTTTTCTCTC
1 AACTTTTCTCTC
*
100999557 AACTGTTCT
1 AACTTTTCT
100999566 TATTTTTCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.30, G:0.03, T:0.48
Consensus pattern (12 bp):
AACTTTTCTCTC
Found at i:101000357 original size:15 final size:15
Alignment explanation
Indices: 101000337--101000389 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
101000327 AAAAATAGTA
101000337 TAAAAAATAAAATAC
1 TAAAAAATAAAATAC
*** *
101000352 TAAAAAATATCTTAA
1 TAAAAAATAAAATAC
101000367 TGAAAAAATAAAATAC
1 T-AAAAAATAAAATAC
*
101000383 GAAAAAA
1 TAAAAAA
101000390 AAATTTTGGG
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
15 18 0.64
16 10 0.36
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.21
Consensus pattern (15 bp):
TAAAAAATAAAATAC
Found at i:101000792 original size:147 final size:147
Alignment explanation
Indices: 101000423--101000955 Score: 792
Period size: 147 Copynumber: 3.6 Consensus size: 147
101000413 GCGAGTTTTT
* *
101000423 TACTAAAATAATATAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCAAAAATTT
1 TACTAAAATAATATATAAA-AAAATACGAAAATAATATATTTTAAAAAATAAAATCCAAAAA-TA
* * * * * *
101000488 AAAAAATACAAACAAAGGGTCAAAATTAGGGTTATTTACTAAATTAATA-AAAAATACTAAAATA
64 AAAAAAAACCAACAAAGTGTCAAAATTAGGGTTATTTATTAAATTAATATAAAAACACTTAAATA
101000552 ATACATTTGAAACATTTATG
129 ATACATTTGAAACA-TTATG
* *
101000572 TACTAAAATAATATA-AAAAAATATA--AAAATAGTATATTTTAAAAAATAAAATCCGAAAATAA
1 TACTAAAATAATATATAAAAAA-ATACGAAAATAATATATTTTAAAAAATAAAATCCAAAAATAA
* *
101000634 AAAAATACCAACAAAGTGTCAAAATTAGGGTTATTTGTTAAATTAATATAAAAACACTTAAATAA
65 AAAAAAACCAACAAAGTGTCAAAATTAGGGTTATTTATTAAATTAATATAAAAACACTTAAATAA
101000699 TACATTTGAAACATTATG
130 TACATTTGAAACATTATG
* * * *
101000717 TGCTAAAATAATATATAAAAAAATACGAAAATAGTATATTTCAAAAAATAAAATCTAAAAATAAA
1 TACTAAAATAATATATAAAAAAATACGAAAATAATATATTTTAAAAAATAAAATCCAAAAATAAA
101000782 AAAAAACCAACAAAGTGTCAAAATTAGGGTTATTTATTAAATTAATATAAAAAAACACTTAAATA
66 AAAAAACCAACAAAGTGTCAAAATTAGGGTTATTTATTAAATTAATAT--AAAAACACTTAAATA
101000847 ATACATTTGAAACATTATG
129 ATACATTTGAAACATTATG
*
101000866 TACTAAAAT-A-ATATAAAAAAA-ACGAAAATAATATATTTTAAAAAATAAAATCCGAAAATAAA
1 TACTAAAATAATATATAAAAAAATACGAAAATAATATATTTTAAAAAATAAAATCCAAAAATAAA
*
101000928 AAAAATACCAACAGAGTGTCAAAATTAG
66 AAAAA-ACCAACAAAGTGTCAAAATTAG
101000956 AGGTGATCAT
Statistics
Matches: 355, Mismatches: 21, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
145 68 0.19
146 107 0.30
147 116 0.33
148 7 0.02
149 57 0.16
ACGTcount: A:0.58, C:0.08, G:0.07, T:0.28
Consensus pattern (147 bp):
TACTAAAATAATATATAAAAAAATACGAAAATAATATATTTTAAAAAATAAAATCCAAAAATAAA
AAAAAACCAACAAAGTGTCAAAATTAGGGTTATTTATTAAATTAATATAAAAACACTTAAATAAT
ACATTTGAAACATTATG
Found at i:101001183 original size:26 final size:24
Alignment explanation
Indices: 101001152--101001201 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
101001142 AAATAAAAAA
*
101001152 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
101001178 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
101001202 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:101001221 original size:21 final size:21
Alignment explanation
Indices: 101001172--101001230 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
101001162 ATAATAAATC
*
101001172 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
101001192 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
101001214 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
101001231 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:101001307 original size:15 final size:16
Alignment explanation
Indices: 101001277--101001309 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
101001267 AAAGGGTTAT
101001277 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
101001294 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
101001309 A
1 A
101001310 ATATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:101004567 original size:56 final size:56
Alignment explanation
Indices: 101004496--101004634 Score: 233
Period size: 56 Copynumber: 2.5 Consensus size: 56
101004486 GAACAAACTC
*
101004496 TAAATACATTGCAACATTAATCTAATTAAACACACTAATCTAATTGGAACATTAAT
1 TAAATACATTACAACATTAATCTAATTAAACACACTAATCTAATTGGAACATTAAT
* * * *
101004552 TAAATTCATTACAACATAAATCTAATTAAATACATTAATCTAATTGGAACATTAAT
1 TAAATACATTACAACATTAATCTAATTAAACACACTAATCTAATTGGAACATTAAT
101004608 TAAATACATTACAACATTAATCTAATT
1 TAAATACATTACAACATTAATCTAATT
101004635 GGAACAAACT
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 76 1.00
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.35
Consensus pattern (56 bp):
TAAATACATTACAACATTAATCTAATTAAACACACTAATCTAATTGGAACATTAAT
Found at i:101004591 original size:18 final size:18
Alignment explanation
Indices: 101004509--101004596 Score: 65
Period size: 18 Copynumber: 4.8 Consensus size: 18
101004499 ATACATTGCA
*
101004509 ACATTAATCTAATTAAAC
1 ACATTAATCTAATTAAAT
*
101004527 ACACTAATCTAATTGGAACATT
1 ACATTAATCTAATT--AA-A-T
* *
101004549 A-ATTAAAT-TCATTACA-
1 ACATT-AATCTAATTAAAT
*
101004565 ACATAAATCTAATTAAAT
1 ACATTAATCTAATTAAAT
101004583 ACATTAATCTAATT
1 ACATTAATCTAATT
101004597 GGAACATTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
16 4 0.08
17 8 0.15
18 27 0.51
19 1 0.02
20 2 0.04
21 7 0.13
22 4 0.08
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (18 bp):
ACATTAATCTAATTAAAT
Found at i:101004608 original size:30 final size:30
Alignment explanation
Indices: 101004518--101004618 Score: 106
Period size: 30 Copynumber: 3.5 Consensus size: 30
101004508 AACATTAATC
* *
101004518 TAATTAAACACACTAATCTAATTGGAACAT
1 TAATTAAATACATTAATCTAATTGGAACAT
* *
101004548 TAATTAAATTCATT-A-C-AACAT--AA-AT
1 TAATTAAATACATTAATCTAA-TTGGAACAT
101004573 CTAATTAAATACATTAATCTAATTGGAACAT
1 -TAATTAAATACATTAATCTAATTGGAACAT
101004604 TAATTAAATACATTA
1 TAATTAAATACATTA
101004619 CAACATTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
25 2 0.04
26 15 0.26
27 3 0.05
28 4 0.07
29 3 0.05
30 28 0.49
31 2 0.04
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (30 bp):
TAATTAAATACATTAATCTAATTGGAACAT
Found at i:101007065 original size:21 final size:20
Alignment explanation
Indices: 101007030--101007077 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
101007020 CATGTATTAG
*
101007030 ATATTAAATAGATATTTATT
1 ATATTAAAAAGATATTTATT
101007050 ATATTATAAAAGATATTTATT
1 ATATTA-AAAAGATATTTATT
101007071 A-ATTAAA
1 ATATTAAA
101007078 TAATTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 10 0.38
21 14 0.54
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
ATATTAAAAAGATATTTATT
Found at i:101009126 original size:19 final size:19
Alignment explanation
Indices: 101009102--101009199 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
101009092 AATCTTTAAG
101009102 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
101009121 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
101009140 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
101009157 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
101009176 GATGTGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
101009197 GAT
1 GAT
101009200 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:101009132 original size:36 final size:35
Alignment explanation
Indices: 101009092--101009177 Score: 115
Period size: 36 Copynumber: 2.4 Consensus size: 35
101009082 ATGGAAATAT
101009092 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTT-A-GATATGACAATCTTAGATATGATATGC
101009128 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATG--ACAATCTTAGATATGATATGC
101009164 AATC-TTAGATATGA
1 AATCTTTAGATATGA
101009178 TGTGCAATCT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
33 6 0.13
34 2 0.04
35 2 0.04
36 37 0.79
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (35 bp):
AATCTTTAGATATGACAATCTTAGATATGATATGC
Found at i:101009178 original size:36 final size:36
Alignment explanation
Indices: 101009108--101009178 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
101009098 TAAGGATATG
101009108 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
101009144 CAATCTTAGATATGATATGCAATCTTAGATATGAT
1 CAATCTTAGATATGATATGCAATCTTAGATATGAT
101009179 GTGCAATCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:101010151 original size:21 final size:23
Alignment explanation
Indices: 101010106--101010151 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
101010096 ATTAATTACT
* *
101010106 TATTTTATACTTATATTTATATA
1 TATTATATAATTATATTTATATA
101010129 TATTATATAATTAT-TTTAT-TA
1 TATTATATAATTATATTTATATA
101010150 TA
1 TA
101010152 AATATAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 5 0.24
23 12 0.57
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTATATAATTATATTTATATA
Found at i:101010224 original size:17 final size:17
Alignment explanation
Indices: 101010204--101010260 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
101010194 TTCTAAACCA
*
101010204 ATATATTTTTTATTTTT
1 ATATAATTTTTATTTTT
*
101010221 ATATAATTATTATCCTTTT
1 ATATAATTTTTAT--TTTT
* *
101010240 ATA-AATTTTTGTTATT
1 ATATAATTTTTATTTTT
101010256 ATATA
1 ATATA
101010261 TTATATATTG
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 6 0.19
17 12 0.38
18 7 0.22
19 7 0.22
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (17 bp):
ATATAATTTTTATTTTT
Found at i:101011597 original size:46 final size:46
Alignment explanation
Indices: 101011546--101011870 Score: 402
Period size: 46 Copynumber: 7.0 Consensus size: 46
101011536 GTGTGCTCTC
* *
101011546 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
101011592 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
101011638 TAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
101011684 TGATA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCG
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
101011730 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
101011776 TGACGGGAAAATGAATAAGAACATGGTTGAAAGATACCATGGCAACA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
101011823 TGACA-GAAAATGAGTAAGACCATAGTTAAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
101011869 TG
1 TG
101011871 TCAAAGATAA
Statistics
Matches: 253, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 1 0.00
46 209 0.83
47 43 0.17
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:101011823 original size:24 final size:24
Alignment explanation
Indices: 101011750--101011824 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
101011740 TGAATAAGAC
101011750 CATGGTTGAAAGATACCATGGCAA
1 CATGGTTGAAAGATACCATGGCAA
* *
101011774 CATGACG-GGAAA-ATGA--ATAAG-AA
1 CATG--GTTGAAAGAT-ACCAT-GGCAA
101011797 CATGGTTGAAAGATACCATGGCAA
1 CATGGTTGAAAGATACCATGGCAA
101011821 CATG
1 CATG
101011825 ACAGAAAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 18
0.63 0.07 0.30
Matches are distributed among these distances:
21 1 0.03
22 5 0.13
23 11 0.29
24 15 0.39
25 5 0.13
26 1 0.03
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.19
Consensus pattern (24 bp):
CATGGTTGAAAGATACCATGGCAA
Found at i:101012170 original size:16 final size:17
Alignment explanation
Indices: 101012151--101012183 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
101012141 ATGATGGAGT
101012151 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
101012167 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
101012184 TATACTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:101014493 original size:16 final size:16
Alignment explanation
Indices: 101014472--101014504 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
101014462 TAGTTTTTTT
101014472 ACTAACAATAATAATA
1 ACTAACAATAATAATA
*
101014488 ACTAACAATAATGATA
1 ACTAACAATAATAATA
101014504 A
1 A
101014505 GGGTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.12, G:0.03, T:0.24
Consensus pattern (16 bp):
ACTAACAATAATAATA
Found at i:101014524 original size:26 final size:26
Alignment explanation
Indices: 101014488--101014579 Score: 141
Period size: 26 Copynumber: 3.6 Consensus size: 26
101014478 AATAATAATA
*
101014488 ACTAACAATAATGATAAGGGTTTTTT
1 ACTAACAATAATAATAAGGGTTTTTT
*
101014514 ACTAACAATAATAATAAGGATTTTTT
1 ACTAACAATAATAATAAGGGTTTTTT
*
101014540 ACTAACAATAATAATAA-GGTTTTTA
1 ACTAACAATAATAATAAGGGTTTTTT
*
101014565 ACTAATAATAATAAT
1 ACTAACAATAATAAT
101014580 TACTAACAAC
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
25 20 0.33
26 41 0.67
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.37
Consensus pattern (26 bp):
ACTAACAATAATAATAAGGGTTTTTT
Found at i:101015124 original size:30 final size:30
Alignment explanation
Indices: 101015090--101015175 Score: 138
Period size: 30 Copynumber: 2.9 Consensus size: 30
101015080 AAAACCCTAG
101015090 CCACCTTGCTTCCCACTTGCACCTACTCCA
1 CCACCTTGCTTCCCACTTGCACCTACTCCA
* *
101015120 CCACCTTACCTCCCACTTGCACCTACTCCA
1 CCACCTTGCTTCCCACTTGCACCTACTCCA
101015150 CCACCTTG-TCTCCCACTTGCACCTAC
1 CCACCTTGCT-TCCCACTTGCACCTAC
101015176 ACCATCAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.17, C:0.51, G:0.06, T:0.26
Consensus pattern (30 bp):
CCACCTTGCTTCCCACTTGCACCTACTCCA
Found at i:101015150 original size:15 final size:15
Alignment explanation
Indices: 101015102--101015150 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
101015092 ACCTTGCTTC
101015102 CCACTTGCACCTACT
1 CCACTTGCACCTACT
101015117 CCAC---CACCTTACCT
1 CCACTTGCACC-TA-CT
101015131 CCCACTTGCACCTACT
1 -CCACTTGCACCTACT
101015147 CCAC
1 CCAC
101015151 CACCTTGTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
12 4 0.14
13 2 0.07
14 2 0.07
15 12 0.43
16 2 0.07
17 2 0.07
18 4 0.14
ACGTcount: A:0.20, C:0.53, G:0.04, T:0.22
Consensus pattern (15 bp):
CCACTTGCACCTACT
Found at i:101015712 original size:9 final size:9
Alignment explanation
Indices: 101015676--101015769 Score: 55
Period size: 10 Copynumber: 9.7 Consensus size: 9
101015666 AGAGCTTTGT
*
101015676 TTTATTTTA
1 TTTATATTA
* *
101015685 TTTTATTTTT
1 -TTTATATTA
101015695 TTTACTATTA
1 TTTA-TATTA
101015705 TTTATATTA
1 TTTATATTA
101015714 -TTACTATTA
1 TTTA-TATTA
*
101015723 TTTCTCATGTA
1 TTTAT-AT-TA
*
101015734 TATATTATTA
1 TTTA-TATTA
101015744 TTTATATTA
1 TTTATATTA
101015753 TTATTATATTA
1 -T-TTATATTA
*
101015764 TATATA
1 TTTATA
101015770 CCCTCTCCAT
Statistics
Matches: 68, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
8 3 0.04
9 24 0.35
10 26 0.38
11 14 0.21
12 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTATATTA
Found at i:101015719 original size:18 final size:18
Alignment explanation
Indices: 101015696--101015768 Score: 76
Period size: 18 Copynumber: 3.9 Consensus size: 18
101015686 TTTATTTTTT
101015696 TTACTATTATTTATATTA
1 TTACTATTATTTATATTA
*
101015714 TTACTATTATTTCTCATGTA
1 TTACTATTATTTAT-AT-TA
*
101015734 TATATTATTATTTATATTA
1 T-TACTATTATTTATATTA
*
101015753 TTATTA-TATTATATAT
1 TTACTATTATT-TATAT
101015769 ACCCTCTCCA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
17 4 0.08
18 23 0.48
19 5 0.10
20 5 0.10
21 11 0.23
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (18 bp):
TTACTATTATTTATATTA
Found at i:101015845 original size:3 final size:3
Alignment explanation
Indices: 101015839--101015916 Score: 88
Period size: 3 Copynumber: 25.0 Consensus size: 3
101015829 TTCTGACTAC
*
101015839 TAT TAT TA- TAT ATAT ATAT GTAT GTAT TAT TGT T-T GTAT TAT TAT
1 TAT TAT TAT TAT -TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT
101015884 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
101015917 CACCTCTATT
Statistics
Matches: 69, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
2 3 0.04
3 51 0.74
4 15 0.22
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:101016137 original size:24 final size:25
Alignment explanation
Indices: 101015997--101016218 Score: 56
Period size: 26 Copynumber: 8.6 Consensus size: 25
101015987 TTGCTATTAC
*
101015997 TATTATTATATATTAGTGTATATTT-T
1 TATTATTAT-TATTA-TATATATTTAT
101016023 TATGTA-TATATATATATATATATTTAT
1 TAT-TATTAT-TAT-TATATATATTTAT
* * * *
101016050 ATAGTATTGTT-TTTTAT-TACTTTAA
1 -TATTATTATTATTATATATA-TTTAT
* * *
101016075 T-TTAATATTTTTAT-TATATTTGCT
1 TATTATTATTATTATATATATTT-AT
* *
101016099 TTTTA-TATT-TCTATATTTA-TTAT
1 TATTATTATTAT-TATATATATTTAT
101016122 TATTATTATTATTATATAGTAGTGTGTAT
1 TATTATTATTATTATATA-TA-T-T-TAT
*
101016151 T-TCTATTATATACATATATATATTT-T
1 TAT-TATTAT-TA-TTATATATATTTAT
*
101016177 TATATAGTATTATTAT-T-TACTTTACTT
1 TAT-TATTATTATTATATATA-TTTA--T
*
101016204 TAATATTATTATTAT
1 TATTATTATTATTAT
101016219 CATTATATCC
Statistics
Matches: 148, Mismatches: 21, Indels: 54
0.66 0.09 0.24
Matches are distributed among these distances:
23 17 0.11
24 31 0.21
25 20 0.14
26 34 0.23
27 18 0.12
28 7 0.05
29 11 0.07
30 4 0.03
31 6 0.04
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (25 bp):
TATTATTATTATTATATATATTTAT
Found at i:101035315 original size:44 final size:43
Alignment explanation
Indices: 101035252--101035572 Score: 182
Period size: 44 Copynumber: 7.5 Consensus size: 43
101035242 ATTTACAGAT
* *
101035252 CTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGATAAGC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGA-GATAAGC
* * * * *
101035296 CTTAAACCCCTAAGCAGTAGGGTAACAGGT-TAA-A-TTTA--
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGAGATAAGC
* ** * * *
101035334 C--AGA-CCCTAAATAGTAGGGAAACAGATCAAATGTGACAAGC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAA-GAGATAAGC
* * ** *
101035375 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATC-GAAGAGATA-AG-C
* *
101035420 CTTAAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGC
1 CTTAAA-CCCCTAAGCAGTAGGGAAACAGATCGAA-GAGATAAGC
* * * * ** *
101035465 CTT-AACCCCTAAACAGTAGGGTAACAG-GCTAA-ATTTACAGAT
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGAGATA-AG-C
**
101035507 CTT-AACACCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGC
1 CTTAAAC-CCCTAAGCAGTAGGGAAACAGATCGAAGA-GATAAGC
*
101035551 CTTAAACCCCTATGCAGTAGGG
1 CTTAAACCCCTAAGCAGTAGGG
101035573 TACCAAGCTG
Statistics
Matches: 202, Mismatches: 53, Indels: 44
0.68 0.18 0.15
Matches are distributed among these distances:
35 19 0.09
36 4 0.02
38 1 0.00
39 1 0.00
40 3 0.01
41 3 0.01
42 10 0.05
43 46 0.23
44 71 0.35
45 14 0.07
46 27 0.13
47 3 0.01
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (43 bp):
CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGAGATAAGC
Found at i:101035390 original size:79 final size:79
Alignment explanation
Indices: 101035258--101035574 Score: 287
Period size: 79 Copynumber: 3.8 Consensus size: 79
101035248 AGATCTTAAC
* * *
101035258 CCCCTAAGCAGTAGGGAAACAGATCAAAGACGATAAGCCTTAAACCCCTAAGCAGTAGGGTAACA
1 CCCCTAAACAGTAGGGAAACAGATCAAAG-TGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACA
101035323 GGTTAAATTTACAGA
65 GGTTAAATTTACAGA
*
101035338 -CCCTAAATAGTAGGGAAACAGATCAAATGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACA
1 CCCCTAAACAGTAGGGAAACAGATCAAA-GTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACA
*
101035402 GGCTGAAGATTTACAGATCTTAAA
65 GG-TTAA-ATTTACAG-------A
* * *
101035426 CCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTT-AACCCCTAAACAGTAGGGTAAC
1 -CCCCTAAACAGTAGGGAAACAGATC-AAAGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAAC
*
101035490 AGGCTAAATTTACAGATCTTAA
64 AGGTTAAATTTACAG------A
* * * *** *
101035512 CACCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAACCCCTATGCAGTAGGGTA
1 C-CCCTAAACAGTAGGGAAACAGATCAAAG-TGACAAGCCTTAAACCCCTAAGCAGTAGGGTA
101035575 CCAAGCTGAA
Statistics
Matches: 198, Mismatches: 23, Indels: 25
0.80 0.09 0.10
Matches are distributed among these distances:
79 60 0.30
80 4 0.02
81 8 0.04
85 3 0.02
86 34 0.17
87 26 0.13
88 3 0.02
89 24 0.12
90 34 0.17
91 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (79 bp):
CCCCTAAACAGTAGGGAAACAGATCAAAGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAG
GTTAAATTTACAGA
Found at i:101035438 original size:46 final size:44
Alignment explanation
Indices: 101035379--101035534 Score: 169
Period size: 43 Copynumber: 3.5 Consensus size: 44
101035369 ACAAGCCTTA
*
101035379 AACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTT
1 AACCCCTAAGCAGTAGGGAAACAGGCTGAAGATTTACAGATCTT
* * * *
101035423 AAACCCCCTAAGCAGTAGGGAAACA-GATCGAAG-GTGACA-AGCCTT
1 -AA-CCCCTAAGCAGTAGGGAAACAGGCT-GAAGATTTACAGA-TCTT
* *
101035468 AACCCCTAAACAGTAGGGTAACAGGCT-AA-ATTTACAGATCTT
1 AACCCCTAAGCAGTAGGGAAACAGGCTGAAGATTTACAGATCTT
101035510 AACACCCTAAGCAGTAGGGAAACAG
1 AAC-CCCTAAGCAGTAGGGAAACAG
101035535 ATCGAAGACG
Statistics
Matches: 91, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
42 12 0.13
43 39 0.43
44 5 0.05
45 11 0.12
46 24 0.26
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (44 bp):
AACCCCTAAGCAGTAGGGAAACAGGCTGAAGATTTACAGATCTT
Found at i:101035573 original size:87 final size:90
Alignment explanation
Indices: 101035337--101035584 Score: 326
Period size: 86 Copynumber: 2.8 Consensus size: 90
101035327 AAATTTACAG
** * *
101035337 ACCCTAAATAGTAGGGAAACAGATCAAATG-TGACAAGCCTTAAACCCCTAAGCAGTAGGGTAAC
1 ACCCTAAGCAGTAGGGAAACAGATCGAA-GACGACAAGCCTTAAACCCCTAAGCAGTAGGGTAAC
101035401 AGGCTGAAGATTTACAGATCTTAAAC
65 AGGCTGAAGATTTACAGATCTTAAAC
* ** *
101035427 CCCCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTT-AACCCCTAAACAGTAGGGTAACA
1 ACCCTAAGCAGTAGGGAAACAGATCGAAGACGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACA
101035491 GGCT-AA-ATTTACAGATCTT-AAC
66 GGCTGAAGATTTACAGATCTTAAAC
*** * *
101035513 ACCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAACCCCTATGCAGTAGGGTACCA
1 ACCCTAAGCAGTAGGGAAACAGATCGAAGACGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACA
*
101035578 AGCTGAA
66 GGCTGAA
101035585 AATTACAACT
Statistics
Matches: 140, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
86 38 0.27
87 36 0.26
88 4 0.03
89 27 0.19
90 35 0.25
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (90 bp):
ACCCTAAGCAGTAGGGAAACAGATCGAAGACGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACA
GGCTGAAGATTTACAGATCTTAAAC
Found at i:101036140 original size:30 final size:30
Alignment explanation
Indices: 101036096--101036181 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
101036086 AAAACCCTAG
*
101036096 CCACCTTGCTTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
* *
101036126 CTACTTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
*
101036156 CCACCTTGTCTCCCACTTGCACCTAC
1 CCACCTTGCCTCCCACTTGCACCTAC
101036182 ACCATCAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.16, C:0.49, G:0.07, T:0.28
Consensus pattern (30 bp):
CCACCTTGCCTCCCACTTGCACCTACTCCA
Found at i:101036709 original size:3 final size:3
Alignment explanation
Indices: 101036698--101036780 Score: 50
Period size: 3 Copynumber: 27.3 Consensus size: 3
101036688 TATTTTTTTT
* * *
101036698 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA CTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
101036741 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
101036781 ATATACCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
2 7 0.11
3 47 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:101036773 original size:18 final size:18
Alignment explanation
Indices: 101036702--101036784 Score: 78
Period size: 18 Copynumber: 4.4 Consensus size: 18
101036692 TTTTTTTTAT
*
101036702 TTTATTATTTTTACTATTA
1 TTTA-TATTATTACTATTA
101036721 TTTATATTATTACTATTA
1 TTTATATTATTACTATTA
* *
101036739 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TACTATTA
*
101036760 TTTATATTATTATTA-TA
1 TTTATATTATTACTATTA
101036777 TTATATAT
1 TT-TATAT
101036785 ACCCTCTCCA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
17 4 0.07
18 27 0.48
19 9 0.16
20 5 0.09
21 11 0.20
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (18 bp):
TTTATATTATTACTATTA
Found at i:101036909 original size:12 final size:13
Alignment explanation
Indices: 101036856--101036911 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 13
101036846 TTCTGACTAC
*
101036856 TATTATTATATAT
1 TATTATTATGTAT
101036869 ATATATATGTATGTAT
1 -TAT-TAT-TATGTAT
*
101036885 TATTGTT-TGTAT
1 TATTATTATGTAT
101036897 TATTATTAT-TAT
1 TATTATTATGTAT
101036909 TAT
1 TAT
101036912 CACCCCTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
12 17 0.47
13 2 0.06
14 5 0.14
15 6 0.17
16 6 0.17
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (13 bp):
TATTATTATGTAT
Found at i:101037118 original size:3 final size:3
Alignment explanation
Indices: 101037110--101037143 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
101037100 ATTTCTATAT
101037110 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
101037144 ATAGTAGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:101038397 original size:29 final size:29
Alignment explanation
Indices: 101038337--101038401 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
101038327 AACCTTTCAA
* *
101038337 AAATAATTAAATTAAAATATTTATTATTT
1 AAATAATAAAATTAAAATATTTATTATAT
* *
101038366 AAATAATAAAATT-ATATTTTTATTATAAT
1 AAATAATAAAATTAAAATATTTATTAT-AT
101038395 AAA-AATA
1 AAATAATA
101038402 TACAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
AAATAATAAAATTAAAATATTTATTATAT
Found at i:101045604 original size:11 final size:10
Alignment explanation
Indices: 101045574--101045607 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
101045564 TAAGAATCAA
101045574 AAATAAATTT
1 AAATAAATTT
101045584 AAATAAATTT
1 AAATAAATTT
101045594 AAATAAAATTT
1 AAAT-AAATTT
101045605 AAA
1 AAA
101045608 GTTTATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAATAAATTT
Found at i:101052739 original size:14 final size:14
Alignment explanation
Indices: 101052720--101052749 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
101052710 TTACATAACT
*
101052720 AAAATTGAACTAAA
1 AAAATTAAACTAAA
101052734 AAAATTAAACTAAA
1 AAAATTAAACTAAA
101052748 AA
1 AA
101052750 TTAAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (14 bp):
AAAATTAAACTAAA
Found at i:101055311 original size:5 final size:5
Alignment explanation
Indices: 101055301--101055329 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
101055291 ATCATTTGGG
101055301 TAAAA TAAAA TAAAA TAAAA -AAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
101055330 AAGACACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
TAAAA
Done.