Locus 1770

Sequence ID 3R_DroMel_CAF1
Location 5,098,567 – 5,098,661
Length 94
Max. P 0.860868
window2905

overview

Window 5

Location 5,098,567 – 5,098,661
Length 94
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.57
Mean single sequence MFE -28.04
Consensus MFE -10.16
Energy contribution -9.56
Covariance contribution -0.60
Combinations/Pair 1.28
Mean z-score -1.98
Structure conservation index 0.36
SVM decision value 0.83
SVM RNA-class probability 0.860868
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5098567 94 + 27905053
AUUCACAUUGUAUU--------------------CAUUCA-UCCACGUUUAUUCAACGUU--UUUGUGAAUAACCCUUUGGCGGCCC-AAAAUGCGGGCUGGCUUAAAGGA--CAAGAAC
.(((......((((--------------------(((...-...(((((.....))))).--...)))))))..(((((((((((((-.......))))).)).)))))).--...))). ( -25.20)
>DroSec_CAF1 5636 95 + 1
AUUCACAUUGUAUU--------------------CAUUCA-UCCGCAUUCAUUGUACGUU--UUUGUGAAUAACCCUUUGGCGAACCCAAAAUGCGGGCUGGCUUAAAGGA--CAAGAUC
(((((((.(((((.--------------------......-............)))))..--..)))))))...((((((((.(.(((.......))).).)).)))))).--....... ( -21.01)
>DroSim_CAF1 5612 94 + 1
AUUCACGUUGUAUU--------------------CAUUCA-UCCACAUUCAUUGUACGUU--UUUGUGAAUAACCCUUUGGCAAGCC-UAAAUGCUGGCUGGCUUAAAGGA--CAAGAUC
(((((((.(((((.--------------------......-............)))))..--..)))))))...((((((((.((((-........)))).)).)))))).--....... ( -22.31)
>DroEre_CAF1 5666 117 + 1
AUUCACAACAGAUUGAGGUGGCACAUGAGUGCUACAUUCGUUCUGCAUUCAUUCUAUGGUCCUUUGUGAAUAACCCUUUGGUGGCCC-GAAAUGCGGGCUGGUCCAAAGGA--CAAGAUC
((((((((((((.(((((((((((....))))))).)))).))))(((.......))).....))))))))...(((((((.(((((-(.....))))))...))))))).--....... ( -46.00)
>DroYak_CAF1 6420 115 + 1
AUUCACUUCAGAUUGAGCUG--ACAUGAGUGCUACACUCGUUCUACAUUCAUUCUAUGUU--UUUGUGAAUAACCCUUCGGCGACCC-AAAAUGCGGGCUGGUCCAAAGGAUUCAAGAUC
((((((...(((.((((..(--(.(((((((...)))))))))....)))).))).....--...))))))...((((.(((.((((-.......))).).).)).)))).......... ( -25.70)
>consensus
AUUCACAUUGUAUU____________________CAUUCA_UCCACAUUCAUUCUACGUU__UUUGUGAAUAACCCUUUGGCGACCC_AAAAUGCGGGCUGGCUUAAAGGA__CAAGAUC
(((((((.........................................................)))))))...((((((((.(.((.........)).).).))))))).......... (-10.16 =  -9.56 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:52 2006