Locus 4846

Sequence ID 3L_DroMel_CAF1
Location 13,587,660 – 13,587,816
Length 156
Max. P 0.910635
window7645 window7646

overview

Window 5

Location 13,587,660 – 13,587,780
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 98.75
Mean single sequence MFE -36.43
Consensus MFE -35.36
Energy contribution -35.67
Covariance contribution 0.31
Combinations/Pair 1.03
Mean z-score -1.73
Structure conservation index 0.97
SVM decision value 0.13
SVM RNA-class probability 0.596109
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13587660 120 + 23771897
ACGUACAUGUCCUGACAAUCCAGGCAACAGGCAGCAUAUGCCAUCAACUGGAGGCCCGCCAGGCGAAAUAAUUAUAAAGCGCUCGCAGCAGCGGAAGCUGCAACGGAAAUGUUACCGUUA
.(((...((.((((......))))))...((((.....)))).....((((.......))))))).............((....)).(((((....)))))(((((........))))). ( -37.90)
>DroSim_CAF1 3461 120 + 1
ACGUACAUGUCCUGACAAUCCAGGCAACAGGCAGCAUAUGCCAUCAACUGGAGGCCCGCCAGGCGAAAUAAUUAUAAAGCGCUCGCAGCAGCGGAAGCUGCAACGGAAAUGUUACCGUUA
.(((...((.((((......))))))...((((.....)))).....((((.......))))))).............((....)).(((((....)))))(((((........))))). ( -37.90)
>DroYak_CAF1 417 120 + 1
ACGUACAUGUCCUGACAAUCCAGGCAACAGGCAGCAUAUGCCAUCAACUGGAGGCCCGCCAGGCGAAAUAAUUAUAAAGCGCUCGCAGCAGCGGAAGCUGCAACGGAAAUGUUACCGUUA
.(((...((.((((......))))))...((((.....)))).....((((.......))))))).............((....)).(((((....)))))(((((........))))). ( -37.90)
>DroAna_CAF1 30697 120 + 1
ACGUAUAGGUCCUGACAAUCCAGGCAACAGGCAGCAUAUGCCAUCAACUGGAGGCCCGCCAGGCGAAAUAAUUAUAAAGCGCUCGCAGCAACGGAAGCUGCAACGGAAAUGUUACCGUUA
.(((...((((.......(((((......((((.....)))).....)))))))))(((...))).............)))...(((((.......)))))(((((........))))). ( -32.01)
>consensus
ACGUACAUGUCCUGACAAUCCAGGCAACAGGCAGCAUAUGCCAUCAACUGGAGGCCCGCCAGGCGAAAUAAUUAUAAAGCGCUCGCAGCAGCGGAAGCUGCAACGGAAAUGUUACCGUUA
(((.((((.(((......(((((......((((.....)))).....))))).(((.....)))..............((....)).(((((....)))))...))).))))...))).. (-35.36 = -35.67 +   0.31)

alignment

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secondary structure

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dotplot

Postscript

Window 6

Location 13,587,700 – 13,587,816
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 94.07
Mean single sequence MFE -42.00
Consensus MFE -36.45
Energy contribution -37.20
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.13
Structure conservation index 0.87
SVM decision value 1.07
SVM RNA-class probability 0.910635
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13587700 116 + 23771897
CCAUCAACUGGAGGCCCGCCAGGCGAAAUAAUUAUAAAGCGCUCGCAGCAGCGGAAGCUGCAACGGAAAUGUUACCGUUAUACCUGGCAAAAGCACGUGCAACUGGG-GCUGGGGGC---
(((.....))).(((((((((((...............((....)).(((((....)))))(((((........)))))...))))))....((....)).....))-)))......--- ( -43.50)
>DroSim_CAF1 3501 116 + 1
CCAUCAACUGGAGGCCCGCCAGGCGAAAUAAUUAUAAAGCGCUCGCAGCAGCGGAAGCUGCAACGGAAAUGUUACCGUUAUACCUGGCAAAAGCACGUGCAACUGGG-GCUGGGGGC---
(((.....))).(((((((((((...............((....)).(((((....)))))(((((........)))))...))))))....((....)).....))-)))......--- ( -43.50)
>DroYak_CAF1 457 120 + 1
CCAUCAACUGGAGGCCCGCCAGGCGAAAUAAUUAUAAAGCGCUCGCAGCAGCGGAAGCUGCAACGGAAAUGUUACCGUUAUACCUGGCAAAAGCACGUGCAACUGGGGGCUGGGUGCUGG
(((...(((...(((((((((((...............((....)).(((((....)))))(((((........)))))...))))))....((....))......))))).)))..))) ( -45.90)
>DroAna_CAF1 30737 112 + 1
CCAUCAACUGGAGGCCCGCCAGGCGAAAUAAUUAUAAAGCGCUCGCAGCAACGGAAGCUGCAACGGAAAUGUUACCGUUAUACCUGGCAAAAGCACGUGCACCG----GCAAGGGG----
(((.....)))...(((((((((.....................(((((.......)))))(((((........)))))...))))))....((.((.....))----))..))).---- ( -35.10)
>consensus
CCAUCAACUGGAGGCCCGCCAGGCGAAAUAAUUAUAAAGCGCUCGCAGCAGCGGAAGCUGCAACGGAAAUGUUACCGUUAUACCUGGCAAAAGCACGUGCAACUGGG_GCUGGGGGC___
(((.....)))..((((((((((...............((....)).(((((....)))))(((((........)))))...))))))....((....)).............))))... (-36.45 = -37.20 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:03 2006