Locus 6279

Sequence ID 3L_DroMel_CAF1
Location 16,725,530 – 16,725,641
Length 111
Max. P 0.518094
window10071

overview

Window 1

Location 16,725,530 – 16,725,641
Length 111
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 82.99
Mean single sequence MFE -27.83
Consensus MFE -18.90
Energy contribution -20.89
Covariance contribution 1.99
Combinations/Pair 1.04
Mean z-score -1.61
Structure conservation index 0.68
SVM decision value -0.03
SVM RNA-class probability 0.518094
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16725530 111 + 23771897
CCAACUCAGGACAGAGUGUGCCCAUGGGCGACAGAGCGCUAAUGACAUUCAACACUAU--AUUCUUGGAGCUUUGUCGGCCUCAGUUGUUAUUAUUUGUAUACGCAUUCGACC
.(((((.(((.(.......(((....)))((((((((.((((.((.((........))--.)).)))).))))))))).))).)))))......................... ( -29.00)
>DroSec_CAF1 32880 109 + 1
CCAACUCAGGGCAGAG--UGCCCAUGGGCGACAGAGCGCUAAUGACAUUCAACACUAU--AUUCUUGGAGCUUUGUCGGCCUCAGUUGUUAUUAUUUCUAUACCCAUUCGAUU
.(((((..((((....--.))))..((.(((((((((.((((.((.((........))--.)).)))).))))))))).))..)))))......................... ( -33.00)
>DroSim_CAF1 37411 111 + 1
CCAACUCAGGGCAGAG--UGCCCAUGGGCGACAGAGCGCUAAUGACAUUCAACACUAUAUAUUCUUGGAGCUUUGUCGGCCUCAGUUGUUAUUAUUUCUAUACCCAUUGGAUU
.(((((..((((....--.))))..((.(((((((((.((((.((.................)))))).))))))))).))..)))))........((((.......)))).. ( -33.63)
>DroEre_CAF1 33391 107 + 1
CCAACUCAGAACGCAG--AG-CCAUGGGCGACAGAGCGCUAAUGACAUUCAACACUAU--AUUCUUGGAGCUUUGUCGGC-UUAGUUCCCAUUGUUUUUAUACCCAUUCCACC
.......((((((..(--((-(...((.(((((((((.((((.((.((........))--.)).)))).))))))))).)-)..))))....))))))............... ( -24.80)
>DroYak_CAF1 36332 91 + 1
UCAACUCGGAGCAC--------------------AGCGCUAAUGACAUUCAACACUAU--AUUCUUGGCGCUUUGUCGGCCUCAGUUGUUAUUGUUUUUAUACCCAUUCUACC
.(((((.((.(((.--------------------((((((((.((.((........))--.)).)))))))).)))...))..)))))......................... ( -18.70)
>consensus
CCAACUCAGGGCAGAG__UGCCCAUGGGCGACAGAGCGCUAAUGACAUUCAACACUAU__AUUCUUGGAGCUUUGUCGGCCUCAGUUGUUAUUAUUUCUAUACCCAUUCGACC
.(((((.(((.(.......(((....)))((((((((.((((.((.................)))))).))))))))).))).)))))......................... (-18.90 = -20.89 +   1.99)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:32 2006