Locus 5653

Sequence ID 2R_DroMel_CAF1
Location 17,956,445 – 17,956,565
Length 120
Max. P 0.500000
window9063

overview

Window 3

Location 17,956,445 – 17,956,565
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 97.36
Mean single sequence MFE -33.13
Consensus MFE -30.83
Energy contribution -30.89
Covariance contribution 0.06
Combinations/Pair 1.06
Mean z-score -1.55
Structure conservation index 0.93
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17956445 120 + 20766785
UUAGCAAAUACAUUUUAUGUCGUUUGCAGCUCACUGGGUUUUGCCGCCCGGAAGUGCAAAAAUGUCAUUCCAUUUGGCCGGACUAAAACCUGCUUAUUCAGGCCUUCUGCCAGUCAAGUG
...((((((((((...)))).)))))).((.(.((((((......))))))..).)).............((((((((.((.......((((......)))).......)).)))))))) ( -32.74)
>DroSec_CAF1 13692 120 + 1
UUAGCAAAUACAUUUUAUGUCGUUUGCAGCUCACUGGGUUUUGCCACCCGGAAGUGCAAAAAUGUCAUUCCAUUUGGCCGGACUAAAACCUGCUUAUUCAGGCCUUCUGCCAGUCAAGUG
...((((((((((...)))).)))))).(((.((((((((..((((...((((..(((....)))..))))...))))..))).....((((......)))).......)))))..))). ( -32.70)
>DroSim_CAF1 9442 120 + 1
UUAGCAAAUACAUUUUAUGUCGUUUGCAGCUCACUGGGUUUUGCCACCCGGAAGUGCAAAAAUGUCAUUCCAUUUGGCCGGACUAAAACCUGCUUAUUCAGGCCUUCUGCCAGUCAAGUG
...((((((((((...)))).)))))).(((.((((((((..((((...((((..(((....)))..))))...))))..))).....((((......)))).......)))))..))). ( -32.70)
>DroEre_CAF1 18309 120 + 1
UUAGCAAAUACAUUUUAUGUCGUUUGCAGCUCAAUGCGCUUUGCUGCCCGGAAGUGCAAAAAUGUCCUUCCAUUUGGCCGGACUAAAACCUGCUUAUUCAGGCCUUCUGCCAGUCAAGUG
...((((((((((...)))).)))))).((.....))((((.((((..((((((.((......((((..((....))..))))......(((......))))))))))).)))).)))). ( -34.40)
>consensus
UUAGCAAAUACAUUUUAUGUCGUUUGCAGCUCACUGGGUUUUGCCACCCGGAAGUGCAAAAAUGUCAUUCCAUUUGGCCGGACUAAAACCUGCUUAUUCAGGCCUUCUGCCAGUCAAGUG
...((((((((((...)))).)))))).((...((((((......))))))....)).............((((((((.((.......((((......)))).......)).)))))))) (-30.83 = -30.89 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:06 2006