Locus 3378

Sequence ID 2L_DroMel_CAF1
Location 9,791,078 – 9,791,192
Length 114
Max. P 0.611438
window5347

overview

Window 7

Location 9,791,078 – 9,791,192
Length 114
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 82.87
Mean single sequence MFE -39.77
Consensus MFE -23.30
Energy contribution -24.75
Covariance contribution 1.45
Combinations/Pair 1.16
Mean z-score -2.50
Structure conservation index 0.59
SVM decision value 0.16
SVM RNA-class probability 0.611438
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9791078 114 + 22407834
AAGCAUGGUCCUACUGUAUCCAGUGCGACCUUCUGCAGCGCGGUUGGGAUACCAAUCAUGUCCAAAAGGAUCAUGAAAAUCACAAAAAAGAUGAGGGCCUCCCACUGCCGGGCA
..(((.((((.(((((....))))).))))...))).((.(((((((((..((..((((((((....))).)))))..(((........)))...))..)))))..)))).)). ( -43.80)
>DroVir_CAF1 112 114 + 1
AAUCCUGGUCCUAUUGUGCACAAUGUGAACGUCUAUACGCCGGCUGGGACACGCAGGCGGUGCAAGCGGCACAUCCGGAUCACAAUUUGGCCGAGAGUCUGCCACUGCCAGGCA
...((((((.......(((((.(((....))).....((((.((........)).)))))))))((.((((..(((((.(((.....)))))).))...)))).)))))))).. ( -40.30)
>DroSec_CAF1 112 114 + 1
AAGCUUGGUCCUACUGUAUCCAGUGCGAUCUUCUGCAGCCCGGUUGGGAUACCAAUCAAGUCCAAAAGGAUCAUGAAAAUCACAAAAAAGAUGAGGGCCUCCCACUGCCGGGCA
..((..((((.(((((....))))).))))....)).((((((((((((..((..(((.((((....))))..)))..(((........)))...))..)))))..))))))). ( -41.30)
>DroSim_CAF1 42 114 + 1
AAGCUUGGUCCUACUGUAUCCAGUGUGAUCAUCUGCAGCCCGGUUGGGAUACCAAUCAAGUCCAAAAGGAUCAUGAAAAUCACAAAAAAGAUGAGGGCCUCCCACUGCCUGGCA
..((.(((((.(((((....))))).)))))...)).(((.((((((((..((..(((.((((....))))..)))..(((........)))...))..)))))..))).))). ( -36.90)
>DroEre_CAF1 118 114 + 1
AAGCCUGGUCCUACUGCAUCCAGUGCGAUCUUCUGCAGCCGGGUUGGGAUACCACUAAAGUCCAAAAGGAUCAUGAACAUCACAAAAAGGACGAGGGCCUUCCACUGCCGGGCA
..((..((((.(((((....))))).))))....)).(((.((((((((..((.((...((((.....(((.......))).......)))).))))..)))))..))).))). ( -35.00)
>DroYak_CAF1 111 114 + 1
AAGCCUGGUCCUACUGCAUCCAGUGCGACCUACUGCAGCCCGGUUGGGAUACCACUAAAGUCCAAAAGGAUCAUGAACAUCACAAAAAGGAUGAGGGCCUUCCGCUGCCGGGCA
..((..((((.(((((....))))).))))....)).((((((((((((..((.((...((((....))))......((((........))))))))..)))))..))))))). ( -41.30)
>consensus
AAGCCUGGUCCUACUGUAUCCAGUGCGAUCUUCUGCAGCCCGGUUGGGAUACCAAUCAAGUCCAAAAGGAUCAUGAAAAUCACAAAAAAGAUGAGGGCCUCCCACUGCCGGGCA
..((..((((.(((((....))))).))))....)).(((.((((((((..((......((((....)))).......(((........)))...))..)))))..))).))). (-23.30 = -24.75 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:00 2006