Locus 8609

Sequence ID 3R_DroMel_CAF1
Location 23,005,598 – 23,005,704
Length 106
Max. P 0.620092
window13840

overview

Window 0

Location 23,005,598 – 23,005,704
Length 106
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 86.57
Mean single sequence MFE -31.12
Consensus MFE -22.58
Energy contribution -22.84
Covariance contribution 0.25
Combinations/Pair 1.14
Mean z-score -1.58
Structure conservation index 0.73
SVM decision value 0.18
SVM RNA-class probability 0.620092
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23005598 106 + 27905053
GAACCCCAGCCAA-UGGGGUUAGCUCAAAGUUGAAGGAUUCAACAGCUUGGGAAAAGAGGUA---UCCCCAUAAAUAUACGAAGCUCUGAUCACCAAAUGGGGCAUCGCA
.(((((((.....-))))))).((((...(((((.....)))))...((((((..((((.(.---((.............))).))))..)).))))...))))...... ( -29.52)
>DroSec_CAF1 8228 106 + 1
GGACCCUAGCCCA-UGGGGUUAGCUCAAAGUUGAAGGAUUCAGCAGCUUGGGAAAAGAGGUU---CCUCCAUAAAUAUACCAAGCUCUGAUUGCAAAAUGGGGCAUCGCA
.(((((((.....-))))))).((((....(((......((((.(((((((.....(((...---.)))..........)))))))))))...)))....))))...... ( -34.16)
>DroEre_CAF1 11879 104 + 1
GGACCCUAGCCGA--GGGGUUAGCUCAAAGUUGAAGGAUUCAGCAGCUUGGGAAAAGUA-UU---CCCCCAUAAAUAUGCGGAGCUGUGAUUACAAAAUGGGGCAUCGAA
.((((((......--)))))).((((....(((...((((..((((((((((((.....-))---)))((((....))).)))))))))))).)))....))))...... ( -30.70)
>DroYak_CAF1 12048 110 + 1
GGACCCUAGCCGAAUGGGGUUAGCUCAAACUUGAAGGAUUCAGCAGCUUGGGAAAAAGAGUUCCCCCCCCAUAAAUAUGCGAAGCUCUGAUUACAAUAUGGGGCAUUGCA
.(((((((......))))))).((((....(((...(((.(((.((((((((((......)))))...((((....))).)))))))))))).)))....))))...... ( -30.10)
>consensus
GGACCCUAGCCGA_UGGGGUUAGCUCAAAGUUGAAGGAUUCAGCAGCUUGGGAAAAGAAGUU___CCCCCAUAAAUAUACGAAGCUCUGAUUACAAAAUGGGGCAUCGCA
.(((((((......))))))).((((....(((...(((.(((.((((((((...............))))...........)))))))))).)))....))))...... (-22.58 = -22.84 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:15:28 2006