Locus 11451

Sequence ID dm3.chr3R
Location 21,278,650 – 21,278,746
Length 96
Max. P 0.983892
window15742 window15743

overview

Window 2

Location 21,278,650 – 21,278,746
Length 96
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 76.88
Shannon entropy 0.44506
G+C content 0.31948
Mean single sequence MFE -20.16
Consensus MFE -13.68
Energy contribution -14.19
Covariance contribution 0.51
Combinations/Pair 1.41
Mean z-score -2.04
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.15
SVM RNA-class probability 0.983892
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 21278650 96 + 27905053
GAGGAAAUGGCCACUUAAUAAUGCUUAAACACUUUUCAUUACAUUCAAUUAGUGGAAAUAAUACGGUGAGUUUUUAAUGGAGUGUCAUUUUAAAAG
...((((((((.((((..(((.(((((.....(((((((((........)))))))))........)))))..)))...))))))))))))..... ( -18.62, z-score =  -1.50, R)
>droSim1.chr3R 21106711 96 + 27517382
GAGGAAAUGGCCACUUAAUAAUGCUUAAACACUUUUCAUUACAUUCAAUUAGUGGAAAUAAUACGGUGAGUGUUUAAUGGAGUGCCAUUCUAAAAG
..((((.((((.((((...((((((((.....(((((((((........)))))))))........)))))))).....))))))))))))..... ( -21.92, z-score =  -2.09, R)
>droSec1.super_13 64413 96 + 2104621
GAGGAAAUGGCCACUUAAUAAUGCUUAAACACUUUUCAUUACAUUCAAUUAGUGGAAAUAAUACGGUGAGUGUUUAAUGGAGUGCCAUUCGAAAAG
...(((.((((.((((...((((((((.....(((((((((........)))))))))........)))))))).....)))))))))))...... ( -21.02, z-score =  -1.73, R)
>droYak2.chr3R 3625706 96 - 28832112
GAGGAAAUGGCCACUUAAUAAUGCUCAAACACUUUUCAUUACAUUCAAUUAGUGGAAAUAAUACAGUGAGUGUUUAAUGAAGUGCCAUUUUAAAAG
...((((((((.((((...((((((((.....(((((((((........)))))))))........)))))))).....))))))))))))..... ( -25.32, z-score =  -3.64, R)
>droEre2.scaffold_4820 3703537 96 - 10470090
GAGGAAAUGGCCACUUAAUAGUGCUCAAACACUUUUCAUUACAUUCAAUUAGUGGGAAUAAUACAUUGAGUGUUUAAUGAAGUGCCAUUUUAAAAG
...((((((((.((((...((..(((((....((..(((((........)))))..)).......)))))..)).....))))))))))))..... ( -24.70, z-score =  -3.08, R)
>droVir3.scaffold_13047 2079286 86 + 19223366
------AUG-CAAAAUGCUACUA-UAAAAUAAAAUUGACAACGAAAACGAAAUCAAAAUCGUCGUUUUUCUUGGCGACCAUG-AUCUUUCUAAAU-
------..(-(.....)).....-..........(((.(((.((((((((...........)))))))).))).))).....-............- (  -9.40, z-score =  -0.17, R)
>consensus
GAGGAAAUGGCCACUUAAUAAUGCUUAAACACUUUUCAUUACAUUCAAUUAGUGGAAAUAAUACGGUGAGUGUUUAAUGAAGUGCCAUUCUAAAAG
.....((((((.((((...((((((((.....(((((((((........)))))))))........)))))))).....))))))))))....... (-13.68 = -14.19 +   0.51)

alignment

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secondary structure

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dotplot

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Window 3

Location 21,278,650 – 21,278,746
Length 96
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 76.88
Shannon entropy 0.44506
G+C content 0.31948
Mean single sequence MFE -17.15
Consensus MFE -13.61
Energy contribution -12.78
Covariance contribution -0.83
Combinations/Pair 1.44
Mean z-score -1.53
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.73
SVM RNA-class probability 0.964224
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 21278650 96 - 27905053
CUUUUAAAAUGACACUCCAUUAAAAACUCACCGUAUUAUUUCCACUAAUUGAAUGUAAUGAAAAGUGUUUAAGCAUUAUUAAGUGGCCAUUUCCUC
......(((((.((((.................(((((((((........))).))))))...(((((....)))))....))))..))))).... (  -9.60, z-score =   0.47, R)
>droSim1.chr3R 21106711 96 - 27517382
CUUUUAGAAUGGCACUCCAUUAAACACUCACCGUAUUAUUUCCACUAAUUGAAUGUAAUGAAAAGUGUUUAAGCAUUAUUAAGUGGCCAUUUCCUC
......(((((((......(((((((((.....(((((((((........))).))))))...))))))))).((((....))))))))))).... ( -20.20, z-score =  -2.58, R)
>droSec1.super_13 64413 96 - 2104621
CUUUUCGAAUGGCACUCCAUUAAACACUCACCGUAUUAUUUCCACUAAUUGAAUGUAAUGAAAAGUGUUUAAGCAUUAUUAAGUGGCCAUUUCCUC
......(((((((......(((((((((.....(((((((((........))).))))))...))))))))).((((....))))))))))).... ( -20.20, z-score =  -2.74, R)
>droYak2.chr3R 3625706 96 + 28832112
CUUUUAAAAUGGCACUUCAUUAAACACUCACUGUAUUAUUUCCACUAAUUGAAUGUAAUGAAAAGUGUUUGAGCAUUAUUAAGUGGCCAUUUCCUC
......(((((((......(((((((((.....(((((((((........))).))))))...))))))))).((((....))))))))))).... ( -19.90, z-score =  -2.18, R)
>droEre2.scaffold_4820 3703537 96 + 10470090
CUUUUAAAAUGGCACUUCAUUAAACACUCAAUGUAUUAUUCCCACUAAUUGAAUGUAAUGAAAAGUGUUUGAGCACUAUUAAGUGGCCAUUUCCUC
......(((((((......(((((((((.....((((((...((.....))...))))))...))))))))).((((....))))))))))).... ( -21.60, z-score =  -2.86, R)
>droVir3.scaffold_13047 2079286 86 - 19223366
-AUUUAGAAAGAU-CAUGGUCGCCAAGAAAAACGACGAUUUUGAUUUCGUUUUCGUUGUCAAUUUUAUUUUA-UAGUAGCAUUUUG-CAU------
-...(((((.(((-....)))..........(((((((...((....))...)))))))...))))).....-.....((.....)-)..------ ( -11.40, z-score =   0.72, R)
>consensus
CUUUUAAAAUGGCACUCCAUUAAACACUCACCGUAUUAUUUCCACUAAUUGAAUGUAAUGAAAAGUGUUUAAGCAUUAUUAAGUGGCCAUUUCCUC
......(((((((......(((((((((.....((((((...((.....))...))))))...))))))))).(((......)))))))))).... (-13.61 = -12.78 +  -0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:43:15 2011