Locus 4817

Sequence ID X_DroMel_CAF1
Location 12,512,415 – 12,512,505
Length 90
Max. P 0.534521
window7874

overview

Window 4

Location 12,512,415 – 12,512,505
Length 90
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.70
Mean single sequence MFE -44.58
Consensus MFE -30.69
Energy contribution -31.08
Covariance contribution 0.39
Combinations/Pair 1.08
Mean z-score -1.56
Structure conservation index 0.69
SVM decision value 0.00
SVM RNA-class probability 0.534521
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12512415 90 + 22224390
AGCGUGGGCUUCUGUCCCUACGGACCGCGCUGUCACUUUGUUCACAAUGCGGACGAGGCCCGCGCCCAACAG---------------------------GCGGCCCAGGC---AGCCAAG
.(((((((((((..(((....)))(((((.(((..........))).)))))..)))))))))))......(---------------------------((.((....))---.)))... ( -41.10)
>DroSec_CAF1 41604 90 + 1
AGCGUGGGCUUCUGUCCCUACGGACCGCGCUGUCACUUUGUUCACAAUGCGGACGAGGCCCGCGCCCAACAG---------------------------GCGGCCCAGGC---AGCCAAG
.(((((((((((..(((....)))(((((.(((..........))).)))))..)))))))))))......(---------------------------((.((....))---.)))... ( -41.10)
>DroSim_CAF1 39091 90 + 1
AGCGUGGGCUUCUGUCCCUACGGACCGCGCUGUCACUUUGUUCACAAUGCGGACGAGGCCCGCGCCCAACAG---------------------------GCGGCCCAGGC---AGCCAAG
.(((((((((((..(((....)))(((((.(((..........))).)))))..)))))))))))......(---------------------------((.((....))---.)))... ( -41.10)
>DroEre_CAF1 42957 117 + 1
AGCGUGGGCUUCUGUCCCUACGGACCGCGCUGCCACUUUGUCCACAAUGCGGACGAGGCCCGCGCCCAACAGGCAGCCCAACAGGCGGCCCAGCAGGCGGCGGCCCAGGC---AUCCAAG
.((.(((((....((((....))))..(((((((...((((((.......))))))((((...(((.....))).(((.....))))))).....)))))))))))).))---....... ( -56.10)
>DroYak_CAF1 37456 105 + 1
AGCGUGGGCUUCUGUCCCUACGGACCGCGCUGUCACUUUGUCCACAAUGCGGACGAGGCCCGCGCCCAACAG------------GCCGCCCAGCAGGCGGCGGCCCAGGC---AUCCAAG
.((.((((((...((((....)))).((((.(...((((((((.......)))))))).).)))).......------------((((((.....)))))))))))).))---....... ( -48.40)
>DroAna_CAF1 50683 96 + 1
AGUGUCGGCUUCUGUCCGUACGGACCGCGUUGCCACUUUGUGCACAAUGCGGACGAGGCGCGUGCCCAGCAG---------CAG---------------GCGGCCCAGGCGGCGGCCAAG
......((((.(((((....((..((((((((.(((...)))..)))))))).)).(((((.(((......)---------)).---------------)).)))..))))).))))... ( -39.70)
>consensus
AGCGUGGGCUUCUGUCCCUACGGACCGCGCUGUCACUUUGUUCACAAUGCGGACGAGGCCCGCGCCCAACAG___________________________GCGGCCCAGGC___AGCCAAG
.(((((((((((..(((....)))(((((.((............)).)))))..)))))))))))..........................................(((....)))... (-30.69 = -31.08 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:46 2006