Locus 3335

Sequence ID 2L_DroMel_CAF1
Location 9,662,710 – 9,662,803
Length 93
Max. P 0.975524
window5288

overview

Window 8

Location 9,662,710 – 9,662,803
Length 93
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 79.41
Mean single sequence MFE -39.55
Consensus MFE -23.75
Energy contribution -24.75
Covariance contribution 1.00
Combinations/Pair 1.13
Mean z-score -3.04
Structure conservation index 0.60
SVM decision value 1.75
SVM RNA-class probability 0.975524
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9662710 93 + 22407834
UCCU---------U-CUGCUUUCUCCGCU-GCGGUACCAACUAUCAGUGGUGAGUGAAAAUCGCUGAUGCGUGGCGCGGAAAAUGGAAGGAGCUG----GAAGGCGUG
.(((---------(-((((((..((((((-(((.(((....((((((((((........)))))))))).))).)))))....))))..)))).)----))))).... ( -39.70)
>DroSec_CAF1 20856 93 + 1
UCUU---------U-CUGCUUUCUCCGCU-GCGGUGCCAACUAUCAGUGGUGAGUGAAAAUCGCUGAUGCGUGGCGCGGAAAAUGGAUGGAGAUG----GAAGGCGAG
.(((---------(-((((((..((((..-.(.((((((..((((((((((........))))))))))..)))))).)....))))..))).))----))))).... ( -37.70)
>DroSim_CAF1 21647 93 + 1
UCUU---------U-CGGCUUUCUCCGCU-GCGGUGCCAACUAUCAGUGGUGAGUGAAAAUCGCUGAUGCGUGGCGCGGAAAAUGGAAGGAGAUG----GAAGGCGAG
((((---------(-((.(((..((((..-.(.((((((..((((((((((........))))))))))..)))))).)....))))..))).))----))))).... ( -39.20)
>DroEre_CAF1 20701 102 + 1
UUUCUCCGCUUUCU-CCGCUUUCUGCGCU-GCGGUGCCAACUAUCAGUGGUGAGUGAAAAUCGCUGAUGCGUGGCGCGGAAAAUGGAUGGGGAUG----UGUGGUAAG
.....((((..(((-(((((((((((((.-.((((....))((((((((((........))))))))))))..))))))))...)).))))))..----.)))).... ( -43.90)
>DroYak_CAF1 20969 102 + 1
CUUCGCCGCUUUCC-CUGCUUUCUGCGCU-GCGGUGCCAACUAUCAGUGGUGAGUGAAAAUCGCUGAUGCGUGGCGCGGAAAAUGGCAGGAGAUG----GGAGGAGAG
((((.((.(.(..(-(((((((((((((.-.((((....))((((((((((........))))))))))))..))))))))...))))))..).)----)).)))).. ( -47.90)
>DroAna_CAF1 23674 104 + 1
UUU--UCGCUUUUUAGGGCUUUCUACAGUGGCGGUGCCAACUAUCAGUGUUGAGUGAAAAUCGCUGAUGCGUGUU--GGAGGAUAGAGGGAGACAUCUGAAGGGAGAG
...--((.(((((((((.((..((....((((...)))).(((((.(((((.((((.....))))))))).....--....)))))))..))...))))))))).)). ( -28.90)
>consensus
UCUU_________U_CUGCUUUCUCCGCU_GCGGUGCCAACUAUCAGUGGUGAGUGAAAAUCGCUGAUGCGUGGCGCGGAAAAUGGAAGGAGAUG____GAAGGCGAG
..................((((((.......(.((((((..((((((((((........))))))))))..)))))).).....)))))).................. (-23.75 = -24.75 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:01 2006