Locus 7265

Sequence ID 3L_DroMel_CAF1
Location 19,453,588 – 19,453,746
Length 158
Max. P 0.691137
window11812 window11813

overview

Window 2

Location 19,453,588 – 19,453,706
Length 118
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 92.50
Mean single sequence MFE -30.30
Consensus MFE -26.41
Energy contribution -26.20
Covariance contribution -0.21
Combinations/Pair 1.11
Mean z-score -2.01
Structure conservation index 0.87
SVM decision value 0.33
SVM RNA-class probability 0.691137
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19453588 118 + 23771897
UGCGCAGGUCAUCAUCUAAAUUAUCAACAUGUGAUCACUU--GACGAAAUAAAUUUGCAAAUGUAUGUCAAAAAUGAUGGUGGUGGCAGCGUGAUAGGAAACUAUCGAUAGGAUCAGGAG
.((((..(((((((((...(((.(..(((((....((.((--(.((((.....))))))).)))))))..).)))...))))))))).))))(((((....))))).............. ( -30.60)
>DroSec_CAF1 94649 120 + 1
UGCGCAGAUCCUCUUCUAAAUUAUCAACACGUGAUUACUUACAACGAAAUAAAUGUACAAAUGUAGGUCAAAAAUGAUGGUGGUGGCAGUGUGAUAGGAAACUAUCGAUAGGAUCAGGAG
......((((((..((..........((((((.((((((................(((....))).((((....)))))))))).)).))))(((((....))))))).))))))..... ( -30.40)
>DroSim_CAF1 95322 120 + 1
UGCGCAGAUCCUCUUCUAAAUUAUCAACACGUGAUUACUUACAACGAAAUAAAUCUACAAAUGUAUGUCAAAAAUGAUGGUGGUGGCAGUGUGAUAGGAAACUAUCGAUAGGAUCGGGAG
......((((((..((..........((((((.((((((................(((....))).((((....)))))))))).)).))))(((((....))))))).))))))..... ( -29.90)
>consensus
UGCGCAGAUCCUCUUCUAAAUUAUCAACACGUGAUUACUUACAACGAAAUAAAUCUACAAAUGUAUGUCAAAAAUGAUGGUGGUGGCAGUGUGAUAGGAAACUAUCGAUAGGAUCAGGAG
........((((..(((....((((.((((((.((((((................(((....))).((((....)))))))))).)).))))(((((....))))))))))))..)))). (-26.41 = -26.20 +  -0.21)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 3

Location 19,453,628 – 19,453,746
Length 118
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 89.69
Mean single sequence MFE -26.33
Consensus MFE -21.19
Energy contribution -21.87
Covariance contribution 0.67
Combinations/Pair 1.11
Mean z-score -2.20
Structure conservation index 0.80
SVM decision value 0.31
SVM RNA-class probability 0.681968
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19453628 118 + 23771897
--GACGAAAUAAAUUUGCAAAUGUAUGUCAAAAAUGAUGGUGGUGGCAGCGUGAUAGGAAACUAUCGAUAGGAUCAGGAGUGCAGUUGGCAGGAAUGAUCGAAAAAGAAGUUGCAAACUA
--...........(((((((.....((((.......(((.((....)).)))(((((....))))))))).(((((....(((.....)))....)))))..........)))))))... ( -28.40)
>DroSec_CAF1 94689 119 + 1
ACAACGAAAUAAAUGUACAAAUGUAGGUCAAAAAUGAUGGUGGUGGCAGUGUGAUAGGAAACUAUCGAUAGGAUCAGGAGGUCUGAUGGCAGGAAUGAUCGAAA-AUAAGUUGCUGAGUU
.((.((......((.(((....))).))......)).))..((..((....((((((....))))))....(((((....(((....))).....)))))....-....))..))..... ( -25.10)
>DroSim_CAF1 95362 119 + 1
ACAACGAAAUAAAUCUACAAAUGUAUGUCAAAAAUGAUGGUGGUGGCAGUGUGAUAGGAAACUAUCGAUAGGAUCGGGAGUUCUGAUGGCAGGAAUGAUCGAAA-AUAAGUUGCUGAGUU
.((((.......(((.(((......(((((...((....))..))))).)))(((((....))))))))..(((((....(((((....))))).)))))....-....))))....... ( -25.50)
>consensus
ACAACGAAAUAAAUCUACAAAUGUAUGUCAAAAAUGAUGGUGGUGGCAGUGUGAUAGGAAACUAUCGAUAGGAUCAGGAGUUCUGAUGGCAGGAAUGAUCGAAA_AUAAGUUGCUGAGUU
...............(((....))).((((....))))..(((..((....((((((....))))))....(((((....(((((....))))).))))).........))..))).... (-21.19 = -21.87 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:36 2006