Locus 4044

Sequence ID 3R_DroMel_CAF1
Location 11,040,009 – 11,040,129
Length 120
Max. P 0.683420
window6476

overview

Window 6

Location 11,040,009 – 11,040,129
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 92.22
Mean single sequence MFE -37.10
Consensus MFE -34.29
Energy contribution -33.97
Covariance contribution -0.32
Combinations/Pair 1.15
Mean z-score -1.70
Structure conservation index 0.92
SVM decision value 0.31
SVM RNA-class probability 0.683420
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11040009 120 + 27905053
AGAUCUUAAACGAGACGCAGGACUCACUGGUGGCCAGGAGUAUUGUGAAGUCUAUGUGCUUGUAGACAACGAUACUGAGUAAGUGCUGUAGUUCUUGGCAUGACCUGAUUAACUUGUGGG
.........(((((...((((((((.((((...)))).((((((((...((((((......)))))).))))))))))))..((((((.......))))))..)))).....)))))... ( -36.80)
>DroSec_CAF1 2754 120 + 1
AGAUCUUAAACGCGAUGCAGGUCUCACUGGUGGCCAGGAGUAUUGUGAAGUCUAUGUGCUUGUAGACAACGAUACUGAGUAAGUACUGUAGUUCUUGGCAUGAGCUAAUUAACCUGCAGC
...............(((((((.....((((.((((((((((((((...((((((......)))))).)))))))..(((....))).....)))))))....))))....))))))).. ( -38.20)
>DroSim_CAF1 2761 120 + 1
AGAUCUUAAACGCGAUGCAGGUCUCACUGGUGGCCAGGAGUAUUGUGAAGUCUAUGUGCUUGUAGACAACGAGACUGAGUAAAUACUGUAGUUCUUGGCAUGGGCUAAAUAACCUGCAGC
...............((((((((((.((((...)))))))...(((..(((((((((..(((....)))(((((((((((....))).))).))))))))))))))..)))))))))).. ( -36.30)
>consensus
AGAUCUUAAACGCGAUGCAGGUCUCACUGGUGGCCAGGAGUAUUGUGAAGUCUAUGUGCUUGUAGACAACGAUACUGAGUAAGUACUGUAGUUCUUGGCAUGAGCUAAUUAACCUGCAGC
...............(((((((.....((((.((((((((((((((...((((((......)))))).)))))))..(((....))).....)))))))....))))....))))))).. (-34.29 = -33.97 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:36 2006