Locus 6679

Sequence ID dm3.chr3L
Location 8,777,346 – 8,777,427
Length 81
Max. P 0.979569
window9194 window9195

overview

Window 4

Location 8,777,346 – 8,777,427
Length 81
Sequences 5
Columns 83
Reading direction forward
Mean pairwise identity 93.89
Shannon entropy 0.10468
G+C content 0.52848
Mean single sequence MFE -32.12
Consensus MFE -29.78
Energy contribution -29.98
Covariance contribution 0.20
Combinations/Pair 1.07
Mean z-score -2.39
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.03
SVM RNA-class probability 0.979569
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 8777346 81 + 24543557
CACUCUAUUUACGAGUGGUGUGGCGCCACAGGCAGUGGAGUGCUUUCCUUCUAGCCAUGGCCA--GAAUGGCCAGAAUGGGAA
(((((((((..(..((((((...)))))).)..)))))))))..((((((((.(((((.....--..))))).)))).)))). ( -32.60, z-score =  -2.22, R)
>droSim1.chr3L 8221923 81 + 22553184
CACUCUAUUUACGAGUGGUGUGGCGCCACAGGCAGUGGAGUGCUUUCCUUCUAGCCAUGGCCA--GAAUGGCCAGAAUGGGAA
(((((((((..(..((((((...)))))).)..)))))))))..((((((((.(((((.....--..))))).)))).)))). ( -32.60, z-score =  -2.22, R)
>droSec1.super_0 1054588 81 + 21120651
CACUCUAUUUACGAGUGGUGUGGCGCCACAGGCAGUGGAGUGCUUUCCUUCUAGCCAUGGCCA--GAAUGGCCAGAAUGGGAA
(((((((((..(..((((((...)))))).)..)))))))))..((((((((.(((((.....--..))))).)))).)))). ( -32.60, z-score =  -2.22, R)
>droYak2.chr3L 21065205 83 - 24197627
CACUCUAUUUACGAGUGGUGUGGCGCCACAGGCAGCAGAGUGUUUUCCUUCUAGCCAUGGCAAAGGAAUGGUUAGAAUGGUAA
((((((.....(..((((((...)))))).).....))))))....((((((((((((.........)))))))))).))... ( -27.80, z-score =  -1.99, R)
>droEre2.scaffold_4784 20499446 81 - 25762168
CACUCUAUUUACGAGUGGUGUGGCGCCACAGGCAGUGGAGUGUUUUCCCUCUGGCCAUGGCCA--GAAUGGUUAGAAUGGGAA
(((((((((..(..((((((...)))))).)..)))))))))..((((((((((((((.....--..)))))))))..))))) ( -35.00, z-score =  -3.28, R)
>consensus
CACUCUAUUUACGAGUGGUGUGGCGCCACAGGCAGUGGAGUGCUUUCCUUCUAGCCAUGGCCA__GAAUGGCCAGAAUGGGAA
(((((((((..(..((((((...)))))).)..))))))))).(((((((((.(((((.........))))).)))).))))) (-29.78 = -29.98 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 8,777,346 – 8,777,427
Length 81
Sequences 5
Columns 83
Reading direction reverse
Mean pairwise identity 93.89
Shannon entropy 0.10468
G+C content 0.52848
Mean single sequence MFE -26.54
Consensus MFE -23.84
Energy contribution -24.16
Covariance contribution 0.32
Combinations/Pair 1.08
Mean z-score -2.56
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.01
SVM RNA-class probability 0.978973
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 8777346 81 - 24543557
UUCCCAUUCUGGCCAUUC--UGGCCAUGGCUAGAAGGAAAGCACUCCACUGCCUGUGGCGCCACACCACUCGUAAAUAGAGUG
((((..((((((((((..--.....))))))))))))))..(((((...(((..((((.......))))..)))....))))) ( -27.50, z-score =  -2.28, R)
>droSim1.chr3L 8221923 81 - 22553184
UUCCCAUUCUGGCCAUUC--UGGCCAUGGCUAGAAGGAAAGCACUCCACUGCCUGUGGCGCCACACCACUCGUAAAUAGAGUG
((((..((((((((((..--.....))))))))))))))..(((((...(((..((((.......))))..)))....))))) ( -27.50, z-score =  -2.28, R)
>droSec1.super_0 1054588 81 - 21120651
UUCCCAUUCUGGCCAUUC--UGGCCAUGGCUAGAAGGAAAGCACUCCACUGCCUGUGGCGCCACACCACUCGUAAAUAGAGUG
((((..((((((((((..--.....))))))))))))))..(((((...(((..((((.......))))..)))....))))) ( -27.50, z-score =  -2.28, R)
>droYak2.chr3L 21065205 83 + 24197627
UUACCAUUCUAACCAUUCCUUUGCCAUGGCUAGAAGGAAAACACUCUGCUGCCUGUGGCGCCACACCACUCGUAAAUAGAGUG
...((.(((((.((((.........)))).)))))))....(((((((.(((..((((.......))))..)))..))))))) ( -23.30, z-score =  -2.80, R)
>droEre2.scaffold_4784 20499446 81 + 25762168
UUCCCAUUCUAACCAUUC--UGGCCAUGGCCAGAGGGAAAACACUCCACUGCCUGUGGCGCCACACCACUCGUAAAUAGAGUG
(((((...........((--((((....)))))))))))..(((((...(((..((((.......))))..)))....))))) ( -26.90, z-score =  -3.15, R)
>consensus
UUCCCAUUCUGGCCAUUC__UGGCCAUGGCUAGAAGGAAAGCACUCCACUGCCUGUGGCGCCACACCACUCGUAAAUAGAGUG
...((.((((((((((.........))))))))))))....(((((...(((..((((.......))))..)))....))))) (-23.84 = -24.16 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:12:25 2011