Locus 5214

Sequence ID X_DroMel_CAF1
Location 13,620,924 – 13,621,044
Length 120
Max. P 0.935594
window8455

overview

Window 5

Location 13,620,924 – 13,621,044
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.08
Mean single sequence MFE -25.66
Consensus MFE -22.34
Energy contribution -23.06
Covariance contribution 0.72
Combinations/Pair 1.06
Mean z-score -1.60
Structure conservation index 0.87
SVM decision value 1.25
SVM RNA-class probability 0.935594
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13620924 120 + 22224390
UAAAAAGCUAGAUAAAUGUCAUCCCCCGUAUUAGAGGUAUUAGACUUUAUAAGUUUAAAAUCUCGUUGAAUGCGACCAACCCCCACAUUUUACGGAUGAUAACGAUUUCUGGCCAGAUAA
......((((((....((((((((.........(((((.(((((((.....))))))).)))))((.(((((.(.........).))))).))))))))))......))))))....... ( -32.10)
>DroSec_CAF1 6774 120 + 1
UAAAAAGCUAGAUUAAUGUCAUCCCCCGUAUUAGAGGUAUUAGACUUUAUAAGUUCAAACUCUCGUUGAAUGCGACCAACCCCCACAUUUUACGGAUGAUAACGAUUUUCGGCCAGAUAA
......((((((((..((((((((.........(((((.((..(((.....)))..)))).)))((.(((((.(.........).))))).))))))))))..)))))..)))....... ( -22.90)
>DroSim_CAF1 6779 120 + 1
UAAAAAGCUAGAUAAAUGUCAUCCCCCGUAUUAGAGGUAUUAGACUUUAUAAGUUUAAAAUCUCGUUGAAUGCGACCAACCCCCACAUUUUACGGAUGAUAACGAUUUUCGGCCAGAUAA
......(((((((...((((((((.........(((((.(((((((.....))))))).)))))((.(((((.(.........).))))).))))))))))...))))..)))....... ( -27.70)
>DroEre_CAF1 6813 119 + 1
UAAAAAGCUAGAUAAAUGUCAUCC-CCGUAUUAGAGGUAUUAGACUUUAAAAGUUUAAAGUCUCGUUGAGUGCGACCAACCCCCACAUUUUCCGGAUGAUAAAGAUUUCCGGUCAGAUAA
......((..((....((((((((-........((((..(((((((.....)))))))..))))(..(((((.(.........).)))))..)))))))))......))..))....... ( -24.90)
>DroYak_CAF1 6333 119 + 1
UAAAAAGCUAGAUAAAUGUCAUCC-CCGUUUUAGAGGUAUACGACUUAAAAAGUUUAAAAUCUCGUUGAAAGCGACCAACCCCCACAUUUUCCCGAUGAUAACGAUUUCCGGCUAGAUAA
.....(((..((....(((((((.-........(((((....((((.....))))....)))))((((........))))..............)))))))......))..)))...... ( -20.70)
>consensus
UAAAAAGCUAGAUAAAUGUCAUCCCCCGUAUUAGAGGUAUUAGACUUUAUAAGUUUAAAAUCUCGUUGAAUGCGACCAACCCCCACAUUUUACGGAUGAUAACGAUUUCCGGCCAGAUAA
......(((((((...((((((((.........(((((.(((((((.....))))))).)))))((((........)))).............))))))))...))))..)))....... (-22.34 = -23.06 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:30 2006