Locus 6224

Sequence ID dm3.chr3L
Location 4,710,542 – 4,710,659
Length 117
Max. P 0.756875
window8552 window8553

overview

Window 2

Location 4,710,542 – 4,710,655
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.31
Shannon entropy 0.22098
G+C content 0.35310
Mean single sequence MFE -25.86
Consensus MFE -19.94
Energy contribution -19.30
Covariance contribution -0.64
Combinations/Pair 1.26
Mean z-score -1.72
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.32
SVM RNA-class probability 0.643971
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 4710542 113 - 24543557
GUUAAUGAGGCUUGGAGACCAAAC-------AGACAACAAGCCUUGAAAACACAGAAAAUCUGAUUUCUUACGAAAUGAUUCUAUUUCGGGAAAUUAAGUGGUUUCCCAUUGUCAUGCUU
(((..(((((((((..........-------......)))))))))..))).(((.....))).........((((((....))))))((((((((....))))))))............ ( -27.39, z-score =  -1.75, R)
>droSim1.chr3L 4242450 113 - 22553184
GUUAAUGAGGCUUUGAGACCAAAC-------AGACAACAAACCUUGAAAACACAGAAAAUCUGAUUUCUUACGAAAUUAUUCUAUUUCGGUAGAUUAAGUGGUUUUCCAUUGUCAUGCUU
.......((((((((....)))).-------.(((((.....(((((.....(((.....)))...(((..((((((......))))))..))))))))(((....))))))))..)))) ( -20.60, z-score =  -0.40, R)
>droSec1.super_2 4694451 113 - 7591821
GUUAAUGAGGCUUGGGGACCAAGC-------AGACAACAAACCUUGAAAACACAGAAAAUCUGAUUUCAUACGAAAUUAUUAUAUUUCGGGAGAUUAAGUGGUUUUCCAUUCUCAUGCUU
....(((((((((((...))))))-------.......................((((((((((((((...((((((......)))))).)))))))...)))))))....))))).... ( -28.40, z-score =  -2.49, R)
>droYak2.chr3L 5292416 120 - 24197627
AUUAAUGAGGUUUGGAGACCAAACACAGCAAACACAGUAAACCUUGAAAACACCGAAAAUCUGAUUUCUUACGAAAUUAUUCUAUUUCGGGAAAUUAAGUGGUUUCCCAAUGCCAUGCUU
........(((..((((((((......((.......))....(((((.....((((((...(((((((....))))))).....))))))....)))))))))))))....)))...... ( -26.70, z-score =  -1.88, R)
>droEre2.scaffold_4784 7426371 110 - 25762168
GUUAAAGAGGUUUGGAGACCA--C-------AUACAA-AAACCUUGAAAACGCAGUGAAUCUGAUUUUUUACGAAAUUAUUCUAUUUCGGGAAAUUAAGUGGUUUCCCAUUGUCAUACUU
......((.(...((((((((--(-------......-......((((((..(((.....)))..))))))((((((......)))))).........)))))))))...).))...... ( -26.20, z-score =  -2.08, R)
>consensus
GUUAAUGAGGCUUGGAGACCAAAC_______AGACAACAAACCUUGAAAACACAGAAAAUCUGAUUUCUUACGAAAUUAUUCUAUUUCGGGAAAUUAAGUGGUUUCCCAUUGUCAUGCUU
........(((..((((((((.............(((......)))...............(((((((...((((((......)))))).)))))))..))))))))....)))...... (-19.94 = -19.30 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 4,710,546 – 4,710,659
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.65
Shannon entropy 0.21497
G+C content 0.33733
Mean single sequence MFE -25.46
Consensus MFE -19.94
Energy contribution -19.30
Covariance contribution -0.64
Combinations/Pair 1.26
Mean z-score -1.85
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.60
SVM RNA-class probability 0.756875
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 4710546 113 - 24543557
AAUAGUUAAUGAGGCUUGGAGACCAAAC-------AGACAACAAGCCUUGAAAACACAGAAAAUCUGAUUUCUUACGAAAUGAUUCUAUUUCGGGAAAUUAAGUGGUUUCCCAUUGUCAU
....(((..(((((((((..........-------......)))))))))..))).(((.....))).........((((((....))))))((((((((....))))))))........ ( -27.59, z-score =  -2.10, R)
>droSim1.chr3L 4242454 113 - 22553184
AAUAGUUAAUGAGGCUUUGAGACCAAAC-------AGACAACAAACCUUGAAAACACAGAAAAUCUGAUUUCUUACGAAAUUAUUCUAUUUCGGUAGAUUAAGUGGUUUUCCAUUGUCAU
............(((..((((((((...-------.....................(((.....)))...(((..((((((......))))))..))).....))))))..))..))).. ( -19.10, z-score =  -0.13, R)
>droSec1.super_2 4694455 113 - 7591821
AAUAGUUAAUGAGGCUUGGGGACCAAGC-------AGACAACAAACCUUGAAAACACAGAAAAUCUGAUUUCAUACGAAAUUAUUAUAUUUCGGGAGAUUAAGUGGUUUUCCAUUCUCAU
........(((((((((((...))))))-------.......................((((((((((((((...((((((......)))))).)))))))...)))))))....))))) ( -27.70, z-score =  -2.60, R)
>droYak2.chr3L 5292420 120 - 24197627
AAUAAUUAAUGAGGUUUGGAGACCAAACACAGCAAACACAGUAAACCUUGAAAACACCGAAAAUCUGAUUUCUUACGAAAUUAUUCUAUUUCGGGAAAUUAAGUGGUUUCCCAAUGCCAU
............(((..((((((((......((.......))....(((((.....((((((...(((((((....))))))).....))))))....)))))))))))))....))).. ( -26.70, z-score =  -2.30, R)
>droEre2.scaffold_4784 7426375 110 - 25762168
AAUAGUUAAAGAGGUUUGGAGACCA--C-------AUACAA-AAACCUUGAAAACGCAGUGAAUCUGAUUUUUUACGAAAUUAUUCUAUUUCGGGAAAUUAAGUGGUUUCCCAUUGUCAU
..........((.(...((((((((--(-------......-......((((((..(((.....)))..))))))((((((......)))))).........)))))))))...).)).. ( -26.20, z-score =  -2.13, R)
>consensus
AAUAGUUAAUGAGGCUUGGAGACCAAAC_______AGACAACAAACCUUGAAAACACAGAAAAUCUGAUUUCUUACGAAAUUAUUCUAUUUCGGGAAAUUAAGUGGUUUCCCAUUGUCAU
............(((..((((((((.............(((......)))...............(((((((...((((((......)))))).)))))))..))))))))....))).. (-19.94 = -19.30 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:03:30 2011