Locus 7034

Sequence ID dm3.chr3L
Location 11,650,895 – 11,650,992
Length 97
Max. P 0.972018
window9687 window9688

overview

Window 7

Location 11,650,895 – 11,650,992
Length 97
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 75.93
Shannon entropy 0.41829
G+C content 0.47562
Mean single sequence MFE -22.26
Consensus MFE -12.77
Energy contribution -12.68
Covariance contribution -0.08
Combinations/Pair 1.20
Mean z-score -1.67
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.57
SVM RNA-class probability 0.745194
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11650895 97 + 24543557
AGAGACAAGUGUCAAUAGAAGGACAUGGAUGUGGGGAAUGGAGCACGGAACGGAG-------------AAUGGACGAGGCGCACAAACAUGUCAGGCAAACAACUUGUAA
....((((((...........((((((..((((.(...((.....))...((...-------------......))...).))))..)))))).........)))))).. ( -20.95, z-score =  -1.83, R)
>droSim1.chr3L 11020612 97 + 22553184
AGAGACAAGUGUCAAUAGAAGGACAUGGAUGUGCGGAAUGGAGCACGGAAUGGAG-------------AAGGGACGUGGCACACAAACAUGUCAGGCAAACAACUUGUAA
....(((((((((..........(((...(((((........)))))..)))...-------------....((((((.........)))))).))).....)))))).. ( -23.30, z-score =  -2.23, R)
>droSec1.super_0 3837861 85 + 21120651
AGAGACAAGUGUCAAUAGAAGGACAUGGAUGUGCGGAAUGGAG-------------------------AAGGGACGUGGCACACAAACAUGUCAGGCAAACAACUUGUAA
....((((((...........((((((..((((.(..(((...-------------------------......)))..).))))..)))))).........)))))).. ( -22.05, z-score =  -2.76, R)
>droYak2.chr3L 11679495 110 + 24197627
AGAGACAAGUGUCAAUAGAAGGACAUGGACGUGGGGAAUGGAGUGCGGAAUGGAGGAUGGAGAAUAGAGAAGGACGUGGAACCCAAACAUGUCAGGCUAACAACUUGUAA
....((((((.....(((...((((((....((((.......((.(.........................).))......))))..))))))...)))...)))))).. ( -24.03, z-score =  -1.74, R)
>droEre2.scaffold_4784 11633184 96 + 25762168
AGAGACAAGUGUCAAUAGAAGGACAUGGACGUGGGGCAUGGAGUGCGGAGUGGAG--------------AAGGACGUGGAAUCCAAACAUGUCAGGCAAGCAACUUGUAA
....((((((...........((((((....((((.((((.....(........)--------------.....))))...))))..)))))).........)))))).. ( -21.55, z-score =  -0.62, R)
>droAna3.scaffold_13337 5919423 82 + 23293914
AGGGACAAGUGUCAAUAGAGGGAUG-AGAUCCUGCUCCUGGGAU---------------------------GGGUGGGUAACAUAAACAUGUCAGGCAAACAACUUGUAA
....((((((......((.(((((.-..))))).))(((((.((---------------------------(.(((.....)))...))).)))))......)))))).. ( -21.70, z-score =  -0.81, R)
>consensus
AGAGACAAGUGUCAAUAGAAGGACAUGGAUGUGGGGAAUGGAGU_CGGAAUGGAG_____________AAAGGACGUGGAACACAAACAUGUCAGGCAAACAACUUGUAA
....(((((((((........)))................................................((((((.........)))))).........)))))).. (-12.77 = -12.68 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 11,650,895 – 11,650,992
Length 97
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 75.93
Shannon entropy 0.41829
G+C content 0.47562
Mean single sequence MFE -17.63
Consensus MFE -10.14
Energy contribution -11.20
Covariance contribution 1.06
Combinations/Pair 1.16
Mean z-score -2.32
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.86
SVM RNA-class probability 0.972018
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11650895 97 - 24543557
UUACAAGUUGUUUGCCUGACAUGUUUGUGCGCCUCGUCCAUU-------------CUCCGUUCCGUGCUCCAUUCCCCACAUCCAUGUCCUUCUAUUGACACUUGUCUCU
..((((((.(((.....((((((..(((((((..((......-------------...))....))))..........)))..))))))........))))))))).... ( -17.82, z-score =  -2.90, R)
>droSim1.chr3L 11020612 97 - 22553184
UUACAAGUUGUUUGCCUGACAUGUUUGUGUGCCACGUCCCUU-------------CUCCAUUCCGUGCUCCAUUCCGCACAUCCAUGUCCUUCUAUUGACACUUGUCUCU
..((((((.(((.....((((((..((((((.((((......-------------........))))........))))))..))))))........))))))))).... ( -22.66, z-score =  -4.16, R)
>droSec1.super_0 3837861 85 - 21120651
UUACAAGUUGUUUGCCUGACAUGUUUGUGUGCCACGUCCCUU-------------------------CUCCAUUCCGCACAUCCAUGUCCUUCUAUUGACACUUGUCUCU
..((((((.(((.....((((((..((((((...........-------------------------........))))))..))))))........))))))))).... ( -20.73, z-score =  -4.14, R)
>droYak2.chr3L 11679495 110 - 24197627
UUACAAGUUGUUAGCCUGACAUGUUUGGGUUCCACGUCCUUCUCUAUUCUCCAUCCUCCAUUCCGCACUCCAUUCCCCACGUCCAUGUCCUUCUAUUGACACUUGUCUCU
..((((((.(((((...((((((..((((..............................................))))....))))))......))))))))))).... ( -15.85, z-score =  -1.57, R)
>droEre2.scaffold_4784 11633184 96 - 25762168
UUACAAGUUGCUUGCCUGACAUGUUUGGAUUCCACGUCCUU--------------CUCCACUCCGCACUCCAUGCCCCACGUCCAUGUCCUUCUAUUGACACUUGUCUCU
..((((((..(......((((((...((((.....))))..--------------.........(((.....)))........))))))........)..)))))).... ( -14.54, z-score =  -0.81, R)
>droAna3.scaffold_13337 5919423 82 - 23293914
UUACAAGUUGUUUGCCUGACAUGUUUAUGUUACCCACCC---------------------------AUCCCAGGAGCAGGAUCU-CAUCCCUCUAUUGACACUUGUCCCU
..((((((.(((((..((((((....))))))..))...---------------------------......((((..((((..-.))))))))...))))))))).... ( -14.20, z-score =  -0.34, R)
>consensus
UUACAAGUUGUUUGCCUGACAUGUUUGUGUGCCACGUCCCUU_____________CUCCAUUCCG_ACUCCAUUCCCCACAUCCAUGUCCUUCUAUUGACACUUGUCUCU
..((((((.(((.....((((((..((((................................................))))..))))))........))))))))).... (-10.14 = -11.20 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:19:15 2011