Locus 1689

Sequence ID 3L_DroMel_CAF1
Location 4,942,706 – 4,942,804
Length 98
Max. P 0.747402
window2606

overview

Window 6

Location 4,942,706 – 4,942,804
Length 98
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 90.79
Mean single sequence MFE -19.20
Consensus MFE -14.70
Energy contribution -15.30
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.79
Structure conservation index 0.77
SVM decision value 0.47
SVM RNA-class probability 0.747402
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4942706 98 - 23771897
AGAAACAAAAAAAAA-UG----U--------GCAGCAACAGCGGCAAGUGAAAGGGUUAACAAAUGGCAGCCAAAACUUUGGCGCUACUGUCAAAAUAAAUGCGAAGCAAU
...............-((----(--------...(((((((..((..........((((.....)))).(((((....)))))))..)))).........)))...))).. ( -19.90)
>DroSec_CAF1 163754 98 - 1
AGAAACAAAAAAAAA-UG----U--------GUAGCAACAGCGGCAAGUGAAAGGGUUAACAAAUGGCAGUCGAAACUUUGGCGCGACUGUCAAAAUAAAUGCGAAGCAAU
...............-((----(--------...(((...((.....))...............(((((((((...(....)..))))))))).......)))...))).. ( -18.70)
>DroSim_CAF1 173835 98 - 1
AGAAACAAAAAAAAA-UG----U--------GUAGCAACAGCGGCAAGUGAAAGGGUUAACAAAUGGCAGUCGAAACUUUGGCGCGACUGUCAAAAUAAAUGCGAAGCAAU
...............-((----(--------...(((...((.....))...............(((((((((...(....)..))))))))).......)))...))).. ( -18.70)
>DroEre_CAF1 164690 94 - 1
AGAAACAAAAAA----UG----U---------GAGCAACAGCGGCAAGUGAAAGGGUUAACAAAUGGCAGUCGAAACUUUGGCGCGACUGUCAAAAUAAAUGCGAAGCAAU
............----((----(---------..(((...((.....))...............(((((((((...(....)..))))))))).......)))...))).. ( -18.40)
>DroYak_CAF1 169358 111 - 1
AGAAACAAAAAAAAAAUAUAUAUAAGUAUUUGUAGUAACAGCGGCAAGUGAAAGGGUUAACAAAUGGCAGUCGAAACUUUGGCGCGACUGUCAAAAUAAAUGCGAAGCAAU
.........................((((((((..((((.((.....))......)))).....(((((((((...(....)..)))))))))..))))))))........ ( -20.30)
>consensus
AGAAACAAAAAAAAA_UG____U________GUAGCAACAGCGGCAAGUGAAAGGGUUAACAAAUGGCAGUCGAAACUUUGGCGCGACUGUCAAAAUAAAUGCGAAGCAAU
........................................((.(((.((..........))...(((((((((...(....)..))))))))).......)))...))... (-14.70 = -15.30 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:43 2006