Locus 10646

Sequence ID dm3.chr3R
Location 15,359,131 – 15,359,190
Length 59
Max. P 0.938194
window14640 window14641

overview

Window 0

Location 15,359,131 – 15,359,190
Length 59
Sequences 6
Columns 60
Reading direction forward
Mean pairwise identity 76.29
Shannon entropy 0.46447
G+C content 0.40051
Mean single sequence MFE -12.82
Consensus MFE -7.54
Energy contribution -8.60
Covariance contribution 1.06
Combinations/Pair 1.27
Mean z-score -1.80
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.42
SVM RNA-class probability 0.938194
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 15359131 59 + 27905053
UUCGUUUUACGGAAGCUUGACUGUUAAUCAU-UUUCAGUGCCUACUUUUAGGCUUUGGUC
........((.(((((((((..((....(((-.....)))...))..))))))))).)). ( -12.80, z-score =  -1.65, R)
>droEre2.scaffold_4770 11464203 59 - 17746568
GUCGCUUUAUGGAAGCCUGACUGUUAAUCAU-UUUCAGUGCCUACUUUUAGGCUUUUGUC
........(..(((((((((..((....(((-.....)))...))..)))))))))..). ( -14.80, z-score =  -2.41, R)
>droYak2.chr3R 4118602 59 + 28832112
UUCGUUUUAUGGAAGCCUGACUGUUAAUCAU-UGUCCGUGCCUACUUUUAGGCUUUUGCC
..........((((((((((..((....(((-.....)))...))..))))))))))... ( -12.90, z-score =  -1.84, R)
>droSec1.super_25 410630 59 - 827797
UUCGUUUUAUGGAAGCCUGACUGUUAAUCAU-UUUCAGUGCCUACUUUUAGGCUUUUGUC
........(..(((((((((..((....(((-.....)))...))..)))))))))..). ( -14.80, z-score =  -2.92, R)
>droSim1.chr3R 21402984 59 - 27517382
UUCGUUUUAUGGAAGCCUGACUGUUAAUCAU-UUUCAGUGCCUACUUUUAGGCUUUUGCC
..........((((((((((..((....(((-.....)))...))..))))))))))... ( -13.40, z-score =  -2.00, R)
>droGri2.scaffold_15116 692868 50 - 1808639
----------UGUAUUGUGUGCGGUGCUUAUGUUUUACAGCCUGCUUUUAACUCUCACAC
----------.....((((.((((.(((((.....)).)))))))..........)))). (  -8.20, z-score =   0.05, R)
>consensus
UUCGUUUUAUGGAAGCCUGACUGUUAAUCAU_UUUCAGUGCCUACUUUUAGGCUUUUGUC
..........((((((((((..((....(((......)))...))..))))))))))... ( -7.54 =  -8.60 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 15,359,131 – 15,359,190
Length 59
Sequences 6
Columns 60
Reading direction reverse
Mean pairwise identity 76.29
Shannon entropy 0.46447
G+C content 0.40051
Mean single sequence MFE -11.30
Consensus MFE -5.63
Energy contribution -5.30
Covariance contribution -0.33
Combinations/Pair 1.50
Mean z-score -1.79
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.72
SVM RNA-class probability 0.796098
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 15359131 59 - 27905053
GACCAAAGCCUAAAAGUAGGCACUGAAA-AUGAUUAACAGUCAAGCUUCCGUAAAACGAA
.......(((((....)))))((.(((.-.((((.....))))...))).))........ (  -9.50, z-score =  -1.47, R)
>droEre2.scaffold_4770 11464203 59 + 17746568
GACAAAAGCCUAAAAGUAGGCACUGAAA-AUGAUUAACAGUCAGGCUUCCAUAAAGCGAC
.......(((((....))))).((((..-.((.....)).))))((((.....))))... ( -13.50, z-score =  -2.75, R)
>droYak2.chr3R 4118602 59 - 28832112
GGCAAAAGCCUAAAAGUAGGCACGGACA-AUGAUUAACAGUCAGGCUUCCAUAAAACGAA
.......(((((....)))))..(((..-.((((.....))))....))).......... ( -12.30, z-score =  -1.91, R)
>droSec1.super_25 410630 59 + 827797
GACAAAAGCCUAAAAGUAGGCACUGAAA-AUGAUUAACAGUCAGGCUUCCAUAAAACGAA
.......(((((....))))).((((..-.((.....)).))))................ ( -10.80, z-score =  -1.99, R)
>droSim1.chr3R 21402984 59 + 27517382
GGCAAAAGCCUAAAAGUAGGCACUGAAA-AUGAUUAACAGUCAGGCUUCCAUAAAACGAA
(((....(((((....))))).((((..-.((.....)).)))))))............. ( -13.00, z-score =  -2.17, R)
>droGri2.scaffold_15116 692868 50 + 1808639
GUGUGAGAGUUAAAAGCAGGCUGUAAAACAUAAGCACCGCACACAAUACA----------
(((((.(.((.....))..(((..........)))..).)))))......---------- (  -8.70, z-score =  -0.45, R)
>consensus
GACAAAAGCCUAAAAGUAGGCACUGAAA_AUGAUUAACAGUCAGGCUUCCAUAAAACGAA
(((....(((((....))))).........((.....))))).................. ( -5.63 =  -5.30 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:27:54 2011