Locus 1479

Sequence ID 2R_DroMel_CAF1
Location 5,637,192 – 5,637,312
Length 120
Max. P 0.999788
window2517

overview

Window 7

Location 5,637,192 – 5,637,312
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.85
Mean single sequence MFE -33.46
Consensus MFE -28.92
Energy contribution -30.72
Covariance contribution 1.80
Combinations/Pair 1.00
Mean z-score -3.18
Structure conservation index 0.86
SVM decision value 4.08
SVM RNA-class probability 0.999788
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5637192 120 + 20766785
AAUGCUCGUCUCUUUGGGCUUUUCGAAGCCUCGCUUCGUCGGAUUAAAAGUGCUCCUCUAGCACGCUCGCAAGUUAGUCCGGCCACAAAAAUAAGAAAACCCAAAACUUUAAAAUAUAAC
............((((((.((((((((((...)))))((((((((((..(((((.....)))))...(....)))))))))))...........)))))))))))............... ( -36.50)
>DroSec_CAF1 3924 120 + 1
AAUGCUCGUCUCUUUGGGCUUUUCGAAGCCUCGCUUCGUCGGAUUAAAAGUGCUCCUCUAGCACGCUCGCAAGUUAGUCCGGCCACAAAAAUAAGAAAACCCAAAACUGUAAAAUAUAAC
............((((((.((((((((((...)))))((((((((((..(((((.....)))))...(....)))))))))))...........)))))))))))............... ( -36.50)
>DroSim_CAF1 4002 120 + 1
AAUGCUCGUCUCUUUGGGCUUUUCGAAGCCUCGCUUCGUCGGAUUAAAAGUGCUCCUCUAGCACGCUCGCAAGUUAGUCCGGCCACAAAAAUAAGAAAACCCAAAACUGUAAAAUAUAAC
............((((((.((((((((((...)))))((((((((((..(((((.....)))))...(....)))))))))))...........)))))))))))............... ( -36.50)
>DroEre_CAF1 4291 111 + 1
AAUGCUCGUCUCUUUGGGCUCUUCGAAGCCUCGCUUCGUCGGAUUAAAAGUGCUCCUCUAGCACGCUAGCAA----GUCCGGCCACAUAAAUAAGAAAACGCAAAACUGCAAA-----AA
...(((((......)))))((((.(((((...)))))((((((((....(((((.....)))))(....).)----))))))).........))))....(((....)))...-----.. ( -29.80)
>DroYak_CAF1 3876 110 + 1
AAUGCUUGUCUCUUUGGGCUUUUCGAAGCCUCGCUUCGUCGGAUUAAAAGUGCUCCUCUAGCACGCUAGCAA----GUCCGGCCACAUAAACAAGAAAACCAAAAACUU-GAA-----AA
....(((((.....(((((....((((((...)))))).((((((....(((((.....)))))(....).)----)))))))).))...)))))..............-...-----.. ( -28.00)
>consensus
AAUGCUCGUCUCUUUGGGCUUUUCGAAGCCUCGCUUCGUCGGAUUAAAAGUGCUCCUCUAGCACGCUCGCAAGUUAGUCCGGCCACAAAAAUAAGAAAACCCAAAACUGUAAAAUAUAAC
............((((((.((((((((((...)))))((((((((((..(((((.....)))))(....)...))))))))))...........)))))))))))............... (-28.92 = -30.72 +   1.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:51 2006