Locus 7934

Sequence ID dm3.chr3L
Location 18,721,330 – 18,721,426
Length 96
Max. P 0.991065
window10921 window10922

overview

Window 1

Location 18,721,330 – 18,721,426
Length 96
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 86.15
Shannon entropy 0.24874
G+C content 0.44525
Mean single sequence MFE -26.34
Consensus MFE -19.40
Energy contribution -20.16
Covariance contribution 0.76
Combinations/Pair 1.18
Mean z-score -3.02
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.45
SVM RNA-class probability 0.991065
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 18721330 96 + 24543557
UGCCCAUUUUCAUUCUUCUCUUCUUGUCCUGGGCUUUUGCUCAUGUAACGAAUUUAAUCUUUUACGCUAACGCUUUCUGCGGGAAAAUGGGGGCCG
..(((((((((.........((((((.(.(((((....))))).)))).)))..................(((.....))).)))))))))..... ( -24.30, z-score =  -2.05, R)
>droSim1.chr3L 18027826 96 + 22553184
UGCCCAUUUUCAUUCUUCUCUUCUUGUCCUGGGCUUUUGCCCAUGUAACGAAUUUAAUCUUUUACGCUAACGCUUUCUGCGGGAAAAUGGGGGCUG
..(((((((((.........((((((.(.(((((....))))).)))).)))..................(((.....))).)))))))))..... ( -27.30, z-score =  -2.94, R)
>droSec1.super_19 694079 91 + 1257711
UGCCCGUUUUCAUUCUUCUCUUCUUGUCCUGGGCUUUUGCCCAUGUAACGAAUUUAAUCUUU-ACGCUAACGCUUUCUGCGGGAAAAUGGGG----
..(((((((((..................(((((....))))).((((.((......)).))-)).....(((.....))).))))))))).---- ( -27.70, z-score =  -3.79, R)
>droYak2.chr3L 8854131 95 - 24197627
UGCCCAUUUUCUUUUCAUUUCUCGUGUCCUGGG-UUUUGCCCAUGUAACGAAUUUAAUCUUUUACGCUAACGCUUUCUGCGGGAAAAUGGGUGCUG
.(((((((((((.........((((....((((-.....))))....))))...................(((.....)))))))))))))).... ( -29.40, z-score =  -4.07, R)
>droEre2.scaffold_4784 10558613 87 - 25762168
UGUCCACUUUCUUUCGUUUUCU---------GGCUUUUGGCCAUGUAACGAAUUUAAUCUUUUACGCUAACGCUUUCUGCGGGAAAACGGGGGCUG
.((((..(((((((((((...(---------(((.....))))...))))))..................(((.....))))))))....)))).. ( -23.00, z-score =  -2.27, R)
>consensus
UGCCCAUUUUCAUUCUUCUCUUCUUGUCCUGGGCUUUUGCCCAUGUAACGAAUUUAAUCUUUUACGCUAACGCUUUCUGCGGGAAAAUGGGGGCUG
..(((((((((..................(((((....)))))...........................(((.....))).)))))))))..... (-19.40 = -20.16 +   0.76)

alignment

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secondary structure

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dotplot

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Window 2

Location 18,721,330 – 18,721,426
Length 96
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 86.15
Shannon entropy 0.24874
G+C content 0.44525
Mean single sequence MFE -22.42
Consensus MFE -16.08
Energy contribution -17.20
Covariance contribution 1.12
Combinations/Pair 1.09
Mean z-score -2.26
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.16
SVM RNA-class probability 0.901586
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 18721330 96 - 24543557
CGGCCCCCAUUUUCCCGCAGAAAGCGUUAGCGUAAAAGAUUAAAUUCGUUACAUGAGCAAAAGCCCAGGACAAGAAGAGAAGAAUGAAAAUGGGCA
.....(((((((((.(((.....))).....................(((...((.((....)).)).)))..............))))))))).. ( -19.10, z-score =  -0.83, R)
>droSim1.chr3L 18027826 96 - 22553184
CAGCCCCCAUUUUCCCGCAGAAAGCGUUAGCGUAAAAGAUUAAAUUCGUUACAUGGGCAAAAGCCCAGGACAAGAAGAGAAGAAUGAAAAUGGGCA
.....(((((((((.(((.....))).....................(((...(((((....))))).)))..............))))))))).. ( -26.00, z-score =  -2.93, R)
>droSec1.super_19 694079 91 - 1257711
----CCCCAUUUUCCCGCAGAAAGCGUUAGCGU-AAAGAUUAAAUUCGUUACAUGGGCAAAAGCCCAGGACAAGAAGAGAAGAAUGAAAACGGGCA
----.(((.(((((..((.....))(((...((-((.((......)).)))).(((((....))))).)))..............))))).))).. ( -22.30, z-score =  -2.08, R)
>droYak2.chr3L 8854131 95 + 24197627
CAGCACCCAUUUUCCCGCAGAAAGCGUUAGCGUAAAAGAUUAAAUUCGUUACAUGGGCAAAA-CCCAGGACACGAGAAAUGAAAAGAAAAUGGGCA
.....(((((((((.(((.....)))((..(((....((......))(((...((((.....-)))).))))))..)).......))))))))).. ( -24.80, z-score =  -2.91, R)
>droEre2.scaffold_4784 10558613 87 + 25762168
CAGCCCCCGUUUUCCCGCAGAAAGCGUUAGCGUAAAAGAUUAAAUUCGUUACAUGGCCAAAAGCC---------AGAAAACGAAAGAAAGUGGACA
......((((((((.(((.....)))..................((((((...((((.....)))---------)...)))))).))))))))... ( -19.90, z-score =  -2.57, R)
>consensus
CAGCCCCCAUUUUCCCGCAGAAAGCGUUAGCGUAAAAGAUUAAAUUCGUUACAUGGGCAAAAGCCCAGGACAAGAAGAGAAGAAUGAAAAUGGGCA
.....(((((((((.(((.....))).(((((..............)))))..(((((....)))))..................))))))))).. (-16.08 = -17.20 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:36:17 2011