Locus 6767

Sequence ID	dm3.chr3L
Location	9,628,506 – 9,628,609
Length	103
Max. P	0.835948

overview

Window 3

Location	9,628,506 – 9,628,609
Length	103
Sequences	7
Columns	111
Reading direction	forward
Mean pairwise identity	66.91
Shannon entropy	0.65191
G+C content	0.33301
Mean single sequence MFE	-20.79
Consensus MFE	-7.20
Energy contribution	-7.07
Covariance contribution	-0.13
Combinations/Pair	1.72
Mean z-score	-1.50
Structure conservation index	0.35
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.33
SVM RNA-class probability	0.649283
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 9628506 103 + 24543557
UGGAAAUUAUUUAAGUGCCCACCAACAAUAAUCUUAAUUUGAAGCUCGCU--CGGUUAUUUAGAUUAGAUGUUGGCCCAUAAAGGCAG------AAUAAUUACAAUAAACA
..(.((((((((...((((..((((((.((((((....((((.(....))--)))......))))))..))))))........)))))------))))))).)........ ( -19.00, z-score =  -0.88, R)
>droAna3.scaffold_13337 3872357 111 + 23293914
UAGAUUUGGUUUUACCACCCAAUUAAUUCAAUCAGUAAGAGGAACUCGUGUACUUCAGAUUAGAUUGGAAGCUAUCAGAGAACUGUGACUAAAGAAUUAUCUUUUUAAACA
..((((.(((......))).))))..((((((((((..((((.((....)).))))..))).)))))))...............((....(((((....)))))....)). ( -17.70, z-score =   0.56, R)
>droEre2.scaffold_4784 9612609 103 + 25762168
UAAAAAUUAUUUAAUUGCCUACCGACAAUAAUCUAAAGUGGUAGCUCGCG--GGGGUAUUUAGAUUAGAUGUUGGCCCAUAAAGGCAG------AAUAAUUAUAAUAAACA
....((((((((...(((((.((((((.(((((((((......((((...--.)))).)))))))))..)))))).......))))))------))))))).......... ( -24.50, z-score =  -1.97, R)
>droYak2.chr3L 21892939 103 - 24197627
GAAAAUUUAUUUGAUUGCCUACCAACAAUAAUCUAAAUUGGAAGCUCGCU--GGGGUAUUUAGAUUAGAUGUUGGCCCAUAAAGGCAG------AAUAAUUUUAAUAAACA
..(((.((((((...(((((.((((((.((((((((((.....((((...--.))))))))))))))..)))))).......))))))------))))).)))........ ( -24.50, z-score =  -2.18, R)
>droSec1.super_0 1862417 103 + 21120651
UAAAAAUUAUUUCAGUGCCCACCAACAAUAAUCUAAAUUAGAAGCUCGCU--CGGUUAUUUAGAUUAGAUGUUGGCCCAUAAAGACAA------AAUAAUUACAAUAAACA
....((((((((.........((((((.((((((((((..((.(....))--)....))))))))))..))))))............)------))))))).......... ( -17.80, z-score =  -2.36, R)
>droSim1.chr3L 9003401 103 + 22553184
UAAAAAUUAUUUCAGUGCCCACCAACAAUAAUCUAAUUUAGAAGCUCGCU--CGGUUAUUUAGAUUAGAUGUUGGCUCAUAAAGGCAA------AAUAAUUACAAUAAACA
....((((((((...((((..((((((....(((((((((((((((....--.)))).)))))))))))))))))........)))))------))))))).......... ( -22.40, z-score =  -3.34, R)
>anoGam1.chr2L 44285081 99 - 48795086
-GGAGCGGAUUUACGCAACAUUCAAUCAACGUCACGAGCGAACGUUCCGUAACGAACAGUUAGAUGGGA---UCGCUAACAAAGUCGA------UAUUAUUAU--UAAACG
-(..(((......)))..).....(((.((......(((((...(((((((((.....)))..))))))---)))))......)).))------)........--...... ( -19.60, z-score =  -0.33, R)
>consensus
UAAAAAUUAUUUAAGUGCCCACCAACAAUAAUCUAAAUUAGAAGCUCGCU__CGGUUAUUUAGAUUAGAUGUUGGCCCAUAAAGGCAA______AAUAAUUAUAAUAAACA
...............((((..((((((.((((((((.......................))))))))..))))))........))))........................ ( -7.20 =  -7.07 +  -0.13)

alignment

secondary structure

dotplot

Window 4

Location	9,628,506 – 9,628,609
Length	103
Sequences	7
Columns	111
Reading direction	reverse
Mean pairwise identity	66.91
Shannon entropy	0.65191
G+C content	0.33301
Mean single sequence MFE	-20.85
Consensus MFE	-9.12
Energy contribution	-8.76
Covariance contribution	-0.36
Combinations/Pair	1.71
Mean z-score	-1.25
Structure conservation index	0.44
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.85
SVM RNA-class probability	0.835948
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 9628506 103 - 24543557
UGUUUAUUGUAAUUAUU------CUGCCUUUAUGGGCCAACAUCUAAUCUAAAUAACCG--AGCGAGCUUCAAAUUAAGAUUAUUGUUGGUGGGCACUUAAAUAAUUUCCA
..........(((((((------.(((((......(((((((..((((((.(((....(--((....)))...))).)))))).))))))))))))....))))))).... ( -20.90, z-score =  -1.07, R)
>droAna3.scaffold_13337 3872357 111 - 23293914
UGUUUAAAAAGAUAAUUCUUUAGUCACAGUUCUCUGAUAGCUUCCAAUCUAAUCUGAAGUACACGAGUUCCUCUUACUGAUUGAAUUAAUUGGGUGGUAAAACCAAAUCUA
.........(((((((((.(((((.(.((..(((((...(((((...........))))).)).)))...)).).)))))..))))))....(((......)))...))). ( -16.50, z-score =   0.61, R)
>droEre2.scaffold_4784 9612609 103 - 25762168
UGUUUAUUAUAAUUAUU------CUGCCUUUAUGGGCCAACAUCUAAUCUAAAUACCCC--CGCGAGCUACCACUUUAGAUUAUUGUCGGUAGGCAAUUAAAUAAUUUUUA
..........(((((((------.(((((......(((.(((..(((((((((......--(....).......))))))))).))).))))))))....))))))).... ( -18.62, z-score =  -1.01, R)
>droYak2.chr3L 21892939 103 + 24197627
UGUUUAUUAAAAUUAUU------CUGCCUUUAUGGGCCAACAUCUAAUCUAAAUACCCC--AGCGAGCUUCCAAUUUAGAUUAUUGUUGGUAGGCAAUCAAAUAAAUUUUC
.................------.(((((......(((((((..((((((((((.....--((....))....)))))))))).))))))))))))............... ( -22.40, z-score =  -2.35, R)
>droSec1.super_0 1862417 103 - 21120651
UGUUUAUUGUAAUUAUU------UUGUCUUUAUGGGCCAACAUCUAAUCUAAAUAACCG--AGCGAGCUUCUAAUUUAGAUUAUUGUUGGUGGGCACUGAAAUAAUUUUUA
..........(((((((------((((((......(((((((..((((((((((....(--((....)))...)))))))))).))))))))))))...)))))))).... ( -23.50, z-score =  -2.27, R)
>droSim1.chr3L 9003401 103 - 22553184
UGUUUAUUGUAAUUAUU------UUGCCUUUAUGAGCCAACAUCUAAUCUAAAUAACCG--AGCGAGCUUCUAAAUUAGAUUAUUGUUGGUGGGCACUGAAAUAAUUUUUA
..........(((((((------((((((......(((((((..((((((((......(--((....))).....)))))))).))))))))))))...)))))))).... ( -23.80, z-score =  -2.53, R)
>anoGam1.chr2L 44285081 99 + 48795086
CGUUUA--AUAAUAAUA------UCGACUUUGUUAGCGA---UCCCAUCUAACUGUUCGUUACGGAACGUUCGCUCGUGACGUUGAUUGAAUGUUGCGUAAAUCCGCUCC-
......--.((((((..------......))))))(((.---...((......))....(((((.((((((((.(((......))).)))))))).)))))...)))...- ( -20.20, z-score =  -0.15, R)
>consensus
UGUUUAUUAUAAUUAUU______UUGCCUUUAUGGGCCAACAUCUAAUCUAAAUAACCG__AGCGAGCUUCCAAUUUAGAUUAUUGUUGGUGGGCACUUAAAUAAUUUUUA
........................(((((......(((((((..(((((.............................))))).))))))))))))............... ( -9.12 =  -8.76 +  -0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:14:04 2011