Locus 6118

Sequence ID	dm3.chr3L
Location	3,818,979 – 3,819,087
Length	108
Max. P	0.870178

overview

Window 5

Location	3,818,979 – 3,819,087
Length	108
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	88.05
Shannon entropy	0.20508
G+C content	0.38744
Mean single sequence MFE	-31.64
Consensus MFE	-23.38
Energy contribution	-26.06
Covariance contribution	2.68
Combinations/Pair	1.06
Mean z-score	-2.15
Structure conservation index	0.74
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.76
SVM RNA-class probability	0.810867
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 3818979 108 + 24543557
GUGUUGGAAAUGAUGUGAACAUAAUAAUAUUAGUGCG--CUUAUUAUUACUAUUGCAACAUUUUCGGUUUUUGCAGCCGCCGGUUGCGGUUGCAUUUUAAAGUGCACUAC
((((((((((((.((..(...((((((((..((....--))))))))))...)..)).)))))))).....(((((((((.....))))))))).........))))... ( -32.50, z-score =  -2.48, R)
>droEre2.scaffold_4784 6516802 108 + 25762168
GUGUUGAAAACGAUGUGGAUUUGAAAUUAUUAGUGCG--CUUAUUAUAACGAUUGCAACAUUUUCGGUUUUUGCAGCCGCCGGUUGCGGUUGCAUUUUUAAGUGCACUGC
(..(((....)))..)..............(((((((--((((......((((((((((.....(((((.....)))))...))))))))))......))))))))))). ( -32.70, z-score =  -1.94, R)
>droYak2.chr3L 4375953 110 + 24197627
GCGUUGAAAAUGAUGUGGAUUGUAAAUGAAUAGUGUGUGCUUAUUACUAUAAUUGCAACAUUUUCGGUUUUUGCAGCCGCCGGUUGCGGUUGCAUUUUAAAGUGCACUAC
((((((((((((.((..(.(((((....((((((....)).))))..))))))..)).)))))))))....(((((((((.....)))))))))........)))..... ( -31.00, z-score =  -1.44, R)
>droSec1.super_2 3812984 108 + 7591821
GUGUUCGAAAUGAUGUGAACUUAAUAAUAUUAGUGCG--CUUAUUAUUACUAUUGCAACAUUUACGGAUCUUGCAGCCGCCGGUUGCGGUUGCAUUUUUAAGUGCACUAC
..(((((........)))))..........(((((((--((((...............(......).....(((((((((.....)))))))))....))))))))))). ( -31.20, z-score =  -2.44, R)
>droSim1.chr3L 3359209 108 + 22553184
GUGUUCGAAAUGAUGUGAACUUAAUAAUAUAAGUGUG--CUUAUUAUUACUAUUGCAACAUUUACGGAUUUUGCAGCCGCCGGUUGCGGUUGCAUUUUUAAGUGCACUAC
((((((((((((.((..(...((((((((..((....--))))))))))...)..)).))))).)))....(((((((((.....))))))))).........))))... ( -30.80, z-score =  -2.45, R)
>consensus
GUGUUGGAAAUGAUGUGAACUUAAUAAUAUUAGUGCG__CUUAUUAUUACUAUUGCAACAUUUUCGGUUUUUGCAGCCGCCGGUUGCGGUUGCAUUUUUAAGUGCACUAC
((((((((((((.((..(...((((((((............))))))))...)..)).)))))))).....(((((((((.....))))))))).........))))... (-23.38 = -26.06 +   2.68)

alignment

secondary structure

dotplot

Window 6

Location	3,818,979 – 3,819,087
Length	108
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	88.05
Shannon entropy	0.20508
G+C content	0.38744
Mean single sequence MFE	-25.06
Consensus MFE	-18.16
Energy contribution	-19.20
Covariance contribution	1.04
Combinations/Pair	1.05
Mean z-score	-2.36
Structure conservation index	0.72
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.00
SVM RNA-class probability	0.870178
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 3818979 108 - 24543557
GUAGUGCACUUUAAAAUGCAACCGCAACCGGCGGCUGCAAAAACCGAAAAUGUUGCAAUAGUAAUAAUAAG--CGCACUAAUAUUAUUAUGUUCACAUCAUUUCCAACAC
.((((((.(((.....((((.((((.....)))).))))...........((((((....))))))..)))--.)))))).............................. ( -25.50, z-score =  -2.38, R)
>droEre2.scaffold_4784 6516802 108 - 25762168
GCAGUGCACUUAAAAAUGCAACCGCAACCGGCGGCUGCAAAAACCGAAAAUGUUGCAAUCGUUAUAAUAAG--CGCACUAAUAAUUUCAAAUCCACAUCGUUUUCAACAC
..(((((.((((....((((.((((.....)))).)))).........((((.......))))....))))--.)))))............................... ( -22.80, z-score =  -1.53, R)
>droYak2.chr3L 4375953 110 - 24197627
GUAGUGCACUUUAAAAUGCAACCGCAACCGGCGGCUGCAAAAACCGAAAAUGUUGCAAUUAUAGUAAUAAGCACACACUAUUCAUUUACAAUCCACAUCAUUUUCAACGC
((.((((.........((((.((((.....)))).))))...........((((((.......)))))).)))))).................................. ( -22.20, z-score =  -1.77, R)
>droSec1.super_2 3812984 108 - 7591821
GUAGUGCACUUAAAAAUGCAACCGCAACCGGCGGCUGCAAGAUCCGUAAAUGUUGCAAUAGUAAUAAUAAG--CGCACUAAUAUUAUUAAGUUCACAUCAUUUCGAACAC
.((((((.((((....((((.((((.....)))).))))...........((((((....)))))).))))--.))))))..........((((..........)))).. ( -30.00, z-score =  -3.61, R)
>droSim1.chr3L 3359209 108 - 22553184
GUAGUGCACUUAAAAAUGCAACCGCAACCGGCGGCUGCAAAAUCCGUAAAUGUUGCAAUAGUAAUAAUAAG--CACACUUAUAUUAUUAAGUUCACAUCAUUUCGAACAC
...(((.((((((...((((.((((.....)))).))))...........((((((....))))))(((((--....)))))....)))))).))).............. ( -24.80, z-score =  -2.52, R)
>consensus
GUAGUGCACUUAAAAAUGCAACCGCAACCGGCGGCUGCAAAAACCGAAAAUGUUGCAAUAGUAAUAAUAAG__CGCACUAAUAUUAUUAAGUUCACAUCAUUUCCAACAC
.((((((.........((((.((((.....)))).))))...........((((((....))))))........)))))).............................. (-18.16 = -19.20 +   1.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:01:35 2011