Locus 2946

Sequence ID dm3.chr2RHet
Location 3,041,794 – 3,041,848
Length 54
Max. P 0.999876
window4046 window4047

overview

Window 6

Location 3,041,794 – 3,041,848
Length 54
Sequences 4
Columns 55
Reading direction forward
Mean pairwise identity 60.06
Shannon entropy 0.68267
G+C content 0.44572
Mean single sequence MFE -14.45
Consensus MFE -6.20
Energy contribution -5.45
Covariance contribution -0.75
Combinations/Pair 1.55
Mean z-score -1.89
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.25
SVM RNA-class probability 0.986631
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 3041794 54 + 3288761
GGAGAGUUUACUUCCUCUCU-AAUCACCGGCCUUGUGGUUCGGCAAUUAUGUCAA
((((((........))))))-(((..((((((....)).))))..)))....... ( -13.30, z-score =  -1.42, R)
>droPer1.super_1039 3433 51 + 6997
GGAGAGAUAACUGUCUCUCU-UAUCACUGGCCUUGUGGUACAGUGGUAUAGA---
((((((((....))))))))-(((((((((((....))).))))))))....--- ( -22.30, z-score =  -3.88, R)
>droWil1.scaffold_181039 452276 53 + 740211
-GAGAUACGAUUAGGUAUCUGAAUCACCGUCCUUGUGGAUCAGCAAUAUAUUAG-
-.((((((......))))))........((((....))))..............- (  -9.30, z-score =  -0.29, R)
>droVir3.scaffold_13050 1180827 55 - 3426691
CGGAAAGCAACUAGCCUUCCAAAUCACUGACCUUGUGGCUCAGCAAUGAAACAAC
.((((.((.....)).))))...(((((((((....)).))))...)))...... ( -12.90, z-score =  -1.95, R)
>consensus
GGAGAGACAACUAGCUCUCU_AAUCACCGGCCUUGUGGUUCAGCAAUAAAGUAA_
..(((((........)))))......((((((....))).)))............ ( -6.20 =  -5.45 +  -0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 3,041,794 – 3,041,848
Length 54
Sequences 4
Columns 55
Reading direction reverse
Mean pairwise identity 60.06
Shannon entropy 0.68267
G+C content 0.44572
Mean single sequence MFE -15.90
Consensus MFE -10.30
Energy contribution -8.93
Covariance contribution -1.38
Combinations/Pair 1.67
Mean z-score -2.82
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 4.67
SVM RNA-class probability 0.999876
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 3041794 54 - 3288761
UUGACAUAAUUGCCGAACCACAAGGCCGGUGAUU-AGAGAGGAAGUAAACUCUCC
......((((..(((..((....)).)))..)))-)(((((........))))). ( -17.20, z-score =  -3.65, R)
>droPer1.super_1039 3433 51 - 6997
---UCUAUACCACUGUACCACAAGGCCAGUGAUA-AGAGAGACAGUUAUCUCUCC
---.......(((((..((....)).)))))...-.((((((......)))))). ( -13.70, z-score =  -2.42, R)
>droWil1.scaffold_181039 452276 53 - 740211
-CUAAUAUAUUGCUGAUCCACAAGGACGGUGAUUCAGAUACCUAAUCGUAUCUC-
-.......((..(((.(((....))))))..))..((((((......)))))).- ( -12.80, z-score =  -2.20, R)
>droVir3.scaffold_13050 1180827 55 + 3426691
GUUGUUUCAUUGCUGAGCCACAAGGUCAGUGAUUUGGAAGGCUAGUUGCUUUCCG
........((..((((.((....))))))..))..(((((((.....))))))). ( -19.90, z-score =  -3.00, R)
>consensus
_UUACUAUAUUGCUGAACCACAAGGCCAGUGAUU_AGAGAGCUAGUUAUCUCUCC
........(((((((.(((....))))))))))..(((((........))))).. (-10.30 =  -8.93 +  -1.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:00:48 2011