Locus 5603

Sequence ID dm3.chr3LHet
Location 1,848,457 – 1,848,536
Length 79
Max. P 0.945505
window7695 window7696

overview

Window 5

Location 1,848,457 – 1,848,536
Length 79
Sequences 3
Columns 91
Reading direction forward
Mean pairwise identity 52.11
Shannon entropy 0.63298
G+C content 0.35095
Mean single sequence MFE -19.87
Consensus MFE -3.47
Energy contribution -4.25
Covariance contribution 0.78
Combinations/Pair 1.38
Mean z-score -2.87
Structure conservation index 0.17
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.59
SVM RNA-class probability 0.752187
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3LHet 1848457 79 + 2555491
AGUGUCUGACCAUGCAGGAGUUCAAAUAG-AACAAAUACAUUGGUCGGAAUAUAUAAAAAAACAAAGAAGACGUCUGCCA-----------
....((((((((((.....((((.....)-))).....)).))))))))...............................----------- ( -14.70, z-score =  -1.21, R)
>droSec1.super_65 166473 79 + 171001
AGUUUCUGACCAUGUAGGAGUUCAAAGAG-AACAAAUACAUUGGUCAGAAUAUAUCAAAAACAAAAGAAGGCGUCUGCCA-----------
...(((((((((((((...((((.....)-)))...)))).)))))))))...................(((....))).----------- ( -24.60, z-score =  -4.90, R)
>droVir3.scaffold_12728 471086 91 - 808307
AAUGUUUUUUCAUACAAAAAUUUAAUUUUCGACCGAUCGAUCCUAUGGCAGCUAUAUGAUAUAGCUGUCCGAUAUUAAUAGGAUUUUGCAC
..............(((((.........((((....))))((((((((((((((((...))))))))))........)))))))))))... ( -20.30, z-score =  -2.51, R)
>consensus
AGUGUCUGACCAUGCAGGAGUUCAAAUAG_AACAAAUACAUUGGUCGGAAUAUAUAAAAAAAAAAAGAAGGCGUCUGCCA___________
....((((((((.............................)))))))).......................................... ( -3.47 =  -4.25 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 1,848,457 – 1,848,536
Length 79
Sequences 3
Columns 91
Reading direction reverse
Mean pairwise identity 52.11
Shannon entropy 0.63298
G+C content 0.35095
Mean single sequence MFE -21.87
Consensus MFE -2.56
Energy contribution -3.57
Covariance contribution 1.01
Combinations/Pair 1.33
Mean z-score -3.76
Structure conservation index 0.12
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.51
SVM RNA-class probability 0.945505
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3LHet 1848457 79 - 2555491
-----------UGGCAGACGUCUUCUUUGUUUUUUUAUAUAUUCCGACCAAUGUAUUUGUU-CUAUUUGAACUCCUGCAUGGUCAGACACU
-----------........((((....(((......)))......(((((.((((...(((-(.....))))...)))))))))))))... ( -16.90, z-score =  -2.10, R)
>droSec1.super_65 166473 79 - 171001
-----------UGGCAGACGCCUUCUUUUGUUUUUGAUAUAUUCUGACCAAUGUAUUUGUU-CUCUUUGAACUCCUACAUGGUCAGAAACU
-----------.(((....)))...................(((((((((.((((...(((-(.....))))...)))))))))))))... ( -24.70, z-score =  -5.22, R)
>droVir3.scaffold_12728 471086 91 + 808307
GUGCAAAAUCCUAUUAAUAUCGGACAGCUAUAUCAUAUAGCUGCCAUAGGAUCGAUCGGUCGAAAAUUAAAUUUUUGUAUGAAAAAACAUU
((((((((((((((.......((.((((((((...))))))))))))))))((((....)))).........))))))))........... ( -24.01, z-score =  -3.96, R)
>consensus
___________UGGCAGACGCCUUCUUUUAUUUUUUAUAUAUUCCGACCAAUGUAUUUGUU_CUAUUUGAACUCCUGCAUGGUCAGACACU
.............................................(((((.((((...(((........)))...)))))))))....... ( -2.56 =  -3.57 +   1.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:51:35 2011