Locus 4416

Sequence ID 3R_DroMel_CAF1
Location 11,650,479 – 11,650,599
Length 120
Max. P 0.627920
window7215

overview

Window 5

Location 11,650,479 – 11,650,599
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.92
Mean single sequence MFE -42.02
Consensus MFE -34.34
Energy contribution -35.10
Covariance contribution 0.76
Combinations/Pair 1.13
Mean z-score -1.42
Structure conservation index 0.82
SVM decision value 0.19
SVM RNA-class probability 0.627920
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11650479 120 - 27905053
UUGUAAGGCAACUUCUUGCGAUAAUUCACCUGUCGCAGGCACGUGCUCGCCUGGAUUUAUCCCACGUGGUCAGUCCGCAGCACGUGCGCGAUGUGAUCGCCCUGCUGACCGAGAGCAUCA
.......((......((((((((.......))))))))(((((((((.((..(((((.(((......))).))))))))))))))))))(((((..(((..(....)..)))..))))). ( -45.50)
>DroSec_CAF1 31265 120 - 1
UUGUAAGGCAACUUCUUGGGAUAAUUCACCUGUCCCAGGCACGUGCUCGCCUGGAUUUAUCCCAGGUGGUCAGUCCGCAGCACGUACGCGAUGUGAUCGCCCUGCUGACCGAGAGCAUCA
....(((....)))(((((((((.......)))))))))...((((((((((((.......))))))(((((((..((..(((((.....)))))...))...)))))))..)))))).. ( -49.00)
>DroSim_CAF1 33449 120 - 1
UUGUAAGGCAACUUCUUGGGAUAAUUCACCUGUCCCAGGCACGUGCUCGCCUGGAUCUAUCCCACGUGGUCAGUCCGCAGCACGUGCGCGAUGUGAUCGCCCUGCUGACGGAGAGCAUCA
....(((....)))(((((((((.......)))))))))...((((((((((((.......)))...)))...(((((((((.(.(.(((((...)))))))))))).)))))))))).. ( -43.30)
>DroEre_CAF1 29278 120 - 1
UUUCAAGGCAACUUCUUGGGAUAAUUCACCUGUCCCAGGCACGUGCUCGUCUGGAUUUGUCCCACGUGGUCAGUCUCCAUCACGUGCGCGAUGUGAUCGCCCUGCUGACGGAGAGCAUCA
....(((....)))(((((((((.......)))))))))...((((((.((((.........((((((((........)))))))).(((((...)))))........)))))))))).. ( -39.50)
>DroYak_CAF1 31958 120 - 1
UUUUAAGACAACUUCUUGGGAUAAUUCACCUGUCCCAGGCACGUGCUCGUCUGGAUUUGUCCCACGUCGUCAGUUCAAAGCAUGUACGCGAUGUGAUCGCCCUGCUGACCGAGAGCAUCA
..............(((((((((.......))))))))).(((((((...((((...((.....))...)))).....)))))))....(((((..(((..(....)..)))..))))). ( -32.80)
>consensus
UUGUAAGGCAACUUCUUGGGAUAAUUCACCUGUCCCAGGCACGUGCUCGCCUGGAUUUAUCCCACGUGGUCAGUCCGCAGCACGUGCGCGAUGUGAUCGCCCUGCUGACCGAGAGCAUCA
....(((....))).((((((((.......))))))))(((((((((.((..(((((...((.....))..))))))))))))))))..(((((..(((..(....)..)))..))))). (-34.34 = -35.10 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:38 2006