Locus 2231

Sequence ID 3R_DroMel_CAF1
Location 6,353,093 – 6,353,192
Length 99
Max. P 0.685451
window3624

overview

Window 4

Location 6,353,093 – 6,353,192
Length 99
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 81.67
Mean single sequence MFE -26.48
Consensus MFE -16.84
Energy contribution -16.73
Covariance contribution -0.11
Combinations/Pair 1.11
Mean z-score -1.95
Structure conservation index 0.64
SVM decision value 0.32
SVM RNA-class probability 0.685451
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6353093 99 + 27905053
C-AAAAAG-----AAAAA-GGCAAAAAUUAAACGUCUGCAGUUCAGUUUUUCUGACAUCAAAAUUGCAGUUGUGGC-GCAGACAACGCGCCA-AAUUCAAGGCGGUCC-----------
.-......-----.....-.((.........(((.(((((((((((.....)))).......))))))).)))(((-((.......))))).-........)).....----------- ( -23.61)
>DroSec_CAF1 117739 100 + 1
CCAAAAAG-----AAAAA-GGCAAAAAUUAAACGUCUGCAGUUCAGUUUUUCUGACAUCAAAAUUGCAGUUGUGGC-GCAGACAACGCGCCA-AAUUCAAGGCGGUCC-----------
........-----.....-.((.........(((.(((((((((((.....)))).......))))))).)))(((-((.......))))).-........)).....----------- ( -23.61)
>DroSim_CAF1 131377 100 + 1
CCAAAAAG-----AAAAA-GGCAAAAAUUAAACGUCUGCAGUUCAGUUUUUCUGACAUCAAAAUUGCAGUUGUGGC-GCAGACAACGCGCCA-AAUUCAAGGCGGUCC-----------
........-----.....-.((.........(((.(((((((((((.....)))).......))))))).)))(((-((.......))))).-........)).....----------- ( -23.61)
>DroEre_CAF1 128852 104 + 1
CAAAAAAGG-UGAAAAAAUGGAAAAAA-UAAACGUCUGCAGUUGCGUUUUUCUGACAUCAAAAUUGCAGUUGUGGC-GCAGACAACGCGCCA-AAUUCAAGGCGGUCC-----------
.........-.........(((.....-.....((((((.((..((.....(((.((.......))))).))..))-))))))....((((.-.......)))).)))----------- ( -26.50)
>DroYak_CAF1 118838 106 + 1
CAAAAAACGAGGAAAAAAUGGAAAAAAUUAAACGUCUGCAGUUGAGUUUUUCUGACAUCAAAAUUGCAGUUGUGGC-GCAGACAACGCGCCA-AAUUCAAGGCGGUCC-----------
..........(((.......(((........(((.(((((((((((((.....))).)))..))))))).)))(((-((.......))))).-..))).......)))----------- ( -26.04)
>DroPer_CAF1 122915 99 + 1
CAACAA-----------------AAAAUGGAAUGUCUGCAGUUGA---UUUUUGACAUCAAAAUUGCAGGCGCGACUGCAGACAACGCGGCAAAAGUCGGGGCGGGGCCCCCACAGCAC
......-----------------.........((((((((((((.---..((((.((.......))))))..))))))))))))..(((((....)))(((((...)))))....)).. ( -35.50)
>consensus
CAAAAAAG_____AAAAA_GGCAAAAAUUAAACGUCUGCAGUUCAGUUUUUCUGACAUCAAAAUUGCAGUUGUGGC_GCAGACAACGCGCCA_AAUUCAAGGCGGUCC___________
.................................((((((.(((........(((.((.......)))))....))).))))))....((((.........))))............... (-16.84 = -16.73 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:28 2006