Locus 1993

Sequence ID 3L_DroMel_CAF1
Location 5,468,815 – 5,468,916
Length 101
Max. P 0.878646
window3121

overview

Window 1

Location 5,468,815 – 5,468,916
Length 101
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 78.79
Mean single sequence MFE -27.17
Consensus MFE -20.29
Energy contribution -19.97
Covariance contribution -0.31
Combinations/Pair 1.18
Mean z-score -1.84
Structure conservation index 0.75
SVM decision value 0.90
SVM RNA-class probability 0.878646
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5468815 101 + 23771897
--CAU-----UUUUAUUAACCAACACUAUGAGCCAGUAAAGGACCCUGGUUGUC-------CACCAGGUCCUCCAACGGACUU----CUACUUGGCUGCUGUGUAACUUUUGCGCUUUU
--...-----............((((...(((((((((..(((((.((((....-------.)))))))))(((...)))...----.))).))))).).))))............... ( -25.90)
>DroSec_CAF1 30404 108 + 1
AACCCUAACCCCUCCCUAACUAACACUAUGAGUCAGUAAAGGACCCUGGUUGUC-------CACCAGGUCCUCCAACGGACUC----CUACUUGGCUGCUGUGUAACUUUUGCGCUUUU
...................((((...((.(((((.((..((((((.((((....-------.))))))))))...)).)))))----.)).)))).....(((((.....))))).... ( -25.20)
>DroSim_CAF1 31973 108 + 1
AACCCUAACCCCUCCCUAACCAACACUAUGAGUCAGUAAAGGACCCUGGUUGUC-------CACCAGGUCCUCCAACGGACUC----CUACUUGGCUGCUGUGUAACUUUUGCGCUUUU
...................((((...((.(((((.((..((((((.((((....-------.))))))))))...)).)))))----.)).)))).....(((((.....))))).... ( -27.50)
>DroEre_CAF1 29903 107 + 1
ACCCUUAA-----------CCAACACUAUGUGCCAAUGA-GGGCCUUGGUUGUCAGUCCAGCGCCAGUUCCUCCAAAGGACUGCUGGCUACUUGGCUUCUGUGUAACUUUUGCGCUUUU
........-----------...((((.....((((((((-.(((....))).))).......((((((((((....))))..))))))...)))))....))))............... ( -30.10)
>consensus
AACCCUAA__CCUCCCUAACCAACACUAUGAGCCAGUAAAGGACCCUGGUUGUC_______CACCAGGUCCUCCAACGGACUC____CUACUUGGCUGCUGUGUAACUUUUGCGCUUUU
......................((((....((((((....(((((.((((............)))))))))(((...)))...........))))))...))))............... (-20.29 = -19.97 +  -0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:59 2006