Locus 6251

Sequence ID 3L_DroMel_CAF1
Location 16,645,517 – 16,645,618
Length 101
Max. P 0.649069
window10024

overview

Window 4

Location 16,645,517 – 16,645,618
Length 101
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 68.15
Mean single sequence MFE -20.77
Consensus MFE -4.58
Energy contribution -6.00
Covariance contribution 1.42
Combinations/Pair 1.44
Mean z-score -2.23
Structure conservation index 0.22
SVM decision value 0.24
SVM RNA-class probability 0.649069
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16645517 101 + 23771897
AGUUAGAUGGACAGUGCAGAAGUUCAAAUUCAGACACACAU----GCCACAUGCAUGUCCACAAAGUAAAAGUACAGUGGAUACAAAAUAAGG------------UAAAUUAAAUAA
.(((.(((((((.........)))))...)).))).....(----(((..((...(((((((...(((....))).)))))))....))..))------------)).......... ( -16.10)
>DroSec_CAF1 18485 97 + 1
AGUUAGAUAGACAGUGCAGAAAUGCAAAUUCAGA----CAU----GCCACAUGCAUGUCUAUAAAGUAGAAGUACAGUAGAUACAAAAUAAGG------------UAAAUCAAAUAA
.........((...((((....))))...))(((----(((----((.....))))))))........((..(((..((.........))..)------------))..))...... ( -20.70)
>DroSim_CAF1 17177 97 + 1
AGUUAGAUAGACAGUGCAGAAAUGCAAAUUCAGA----CAU----GCCACAUGCAUGUCUAUAAAGUAGAAGUACAGUAGAUACAAAAUAAGG------------UAAAUCAAAUAA
.........((...((((....))))...))(((----(((----((.....))))))))........((..(((..((.........))..)------------))..))...... ( -20.70)
>DroEre_CAF1 18870 105 + 1
AG----AUAGAUAGUGCAGAAAUGCAAGUUCUGA----CGU----GCCACAUGCAUUUCUAUGAAGUAGAAGUACAGUGGAGACCAAGUAAGGAUACGGAUUAGAUGAAUAAAAUAA
..----.((((...((((....))))...)))).----(((----(((((.((.((((((((...)))))))).))))))...((......)).))))................... ( -25.80)
>DroYak_CAF1 19637 105 + 1
GG----AUGGAUAGUGCAGAAUUGCAAAUUCUGA----CAU----GCCACAUGCAUUUCUAUACAGUGGAAGUACAGUGGAUACAAAGUAAGGAUUCGGGUUAGGUAAAUAAAAUCA
.(----((......(((..((((.(.((((((.(----(..----.((((.((.((((((((...)))))))).)))))).......)).)))))).)))))..)))......))). ( -20.70)
>DroPer_CAF1 17755 84 + 1
UGUU-----------GCA-AAAUGCACAUACACA----UACAGUAGGGAUAUGCGUGUAUGAACAGUG-UUGAACAGUGG-UGCAAUGAUGGG------------AGAACCACA---
....-----------...-...(((((.....((----(((((((......))).))))))..((.((-.....)).)))-))))....(((.------------....)))..--- ( -20.60)
>consensus
AGUU__AUAGACAGUGCAGAAAUGCAAAUUCAGA____CAU____GCCACAUGCAUGUCUAUAAAGUAGAAGUACAGUGGAUACAAAAUAAGG____________UAAAUCAAAUAA
.........((...((((....))))...))........................(((((((...(((....))).))))))).................................. ( -4.58 =  -6.00 +   1.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:47 2006