Locus 2399

Sequence ID 2R_DroMel_CAF1
Location 8,639,478 – 8,639,595
Length 117
Max. P 0.527990
window3967

overview

Window 7

Location 8,639,478 – 8,639,595
Length 117
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 87.17
Mean single sequence MFE -32.38
Consensus MFE -22.79
Energy contribution -22.97
Covariance contribution 0.19
Combinations/Pair 1.21
Mean z-score -1.46
Structure conservation index 0.70
SVM decision value -0.01
SVM RNA-class probability 0.527990
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8639478 117 + 20766785
CUGAACAUCAGAAAGGAGAU---CGGCCAGGAGAGAACUAUUCAAGGAAAGUACUGCUUCCUCUCGGUAUCCCCUGCCAAAAUCCUGGGGAUCGAAACAAGCAUAGGUAGCUUCAGAACU
((((.............(((---(..((((((((((.........((((........))))))))((((.....))))....)))))).))))......(((.......))))))).... ( -27.90)
>DroSec_CAF1 19651 120 + 1
CUGAACAUCAGAAAGGAGAUCAUCGGCCAGAAGAGAACUAUUCAAGGAAAGUACUGCUUCCUCUCGGUAUCUCCUGCCAAAAUUCUGGGGAUCGAAAGAAACAUCGGUAGCUUCAGAACA
(((.....)))..(((((((.(((((...((((((.(((.((....)).))).)).))))...)))))))))))).......(((((((((((((........)))))..)))))))).. ( -33.30)
>DroSim_CAF1 23328 120 + 1
CUGAACAUCAGAAAGGAGAUCAUCGACCAGAAGAGAACUAUUCAAGGGAAGUACUGCUUCCUCUCGGUAUCUCCUGCCAAAAUACUGAGGAUCGAAAGAAACAUCGGUAGCUUCAGAACA
((((((....(..(((((((.(((((...(((........)))..((((((.....)))))).))))))))))))..)....(((((((..((....))..).))))))).))))).... ( -37.70)
>DroYak_CAF1 19622 117 + 1
CUGAACAUCAGGAAGGAGGU---CGGCCAGGGUAGAAGCAUCCAAGGAAAGUACUGCUUUCUCUCGGUAUCCCCUGCCAAGAUAAUGGGGAUCGAAACAUCGCUCGGUAGCUUCAAAACU
(((.....)))....(((((---..(((.((((.((.....((.(((((((.....))))).)).)).((((((............)))))).......))))))))).)))))...... ( -30.60)
>consensus
CUGAACAUCAGAAAGGAGAU___CGGCCAGAAGAGAACUAUUCAAGGAAAGUACUGCUUCCUCUCGGUAUCCCCUGCCAAAAUACUGGGGAUCGAAACAAACAUCGGUAGCUUCAGAACA
(((.....)))..(((((((.....(((.(((........)))..((((((.....))))))...)))))))))).........(((((((((((........)))))..)))))).... (-22.79 = -22.97 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:05 2006