Locus 1524

Sequence ID 2L_DroMel_CAF1
Location 4,128,964 – 4,129,056
Length 92
Max. P 0.710963
window2468

overview

Window 8

Location 4,128,964 – 4,129,056
Length 92
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 67.46
Mean single sequence MFE -26.31
Consensus MFE -13.06
Energy contribution -12.02
Covariance contribution -1.05
Combinations/Pair 1.67
Mean z-score -1.53
Structure conservation index 0.50
SVM decision value 0.38
SVM RNA-class probability 0.710963
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4128964 92 - 22407834
--------GCAAUAAG-----AGCUCAUACUAGCUUUUGGCUCCGAAACUUUCCUGUAUUUUCUGCCAGUGCAUUUU-GCUCGGCGUGUGGGCGGGUUUUUGUUGA
--------.(((((((-----(((((......((..(((((...(((((......)).)))...))))).)).....-(((((.....))))))))))))))))). ( -27.20)
>DroSec_CAF1 257921 95 - 1
--------CCAACAAUUUUCCUACUUAUACAAGUUUU--GUUCCGGAGCUUCCACCUGAUUUCUGCCAGUGCAUCCU-GCUCGGCGUGUGGGCGGGUUUUUGUUGA
--------.((((((....((..((((((((((((((--(...)))))))).............(((.(.((.....-)).)))))))))))..))...)))))). ( -28.50)
>DroSim_CAF1 261611 95 - 1
--------CCAACAAUUUUCCUACUUAUACAAGUUUU--CUUCCGGAGCUUUCACCUGAUUUCUGCCAGUGCAUCCU-GCUCGGCGUGUGGGCGGGUUUUUGUUGA
--------.((((((....((..((((((((((((((--.....))))))).............(((.(.((.....-)).)))))))))))..))...)))))). ( -27.30)
>DroEre_CAF1 269060 99 - 1
GCUCUUUCCCAACAGG-----AGCUUGUACUAGUUUU-GGUACCGGAAGUUCGUCCAGUUUUCUGCCAGUGCAUCCU-GCUCGGCAUGUGGGCGGGUUUUUGUUGA
((((((.......)))-----)))..((((((....)-)))))((((((..((((((......((((.(.((.....-)).)))))..))))))..)))))).... ( -31.90)
>DroYak_CAF1 276504 99 - 1
CCUCUUUCCCAACAAG-----AGCUUAUACUAGUAUU-GGUUCCGCAACUCUCGCCUGUUUUCUGCCAGUGCAUCCU-GCUCGGCGUGUGGGCGGGUUUUUGUUGA
.........(((((((-----(((........(((((-(((.....(((........)))....))))))))...((-(((((.....))))))))))))))))). ( -30.60)
>DroAna_CAF1 303324 83 - 1
-------UUUAAC-AUACUUUUACUUAUAA-----UU-AG--CCGCAA-------UUAUUUUUUGUCAGUGCUUGUCAAACCAUUUUGUGGGUGAACUUCUGUUGA
-------.(((((-(....(((((((((((-----..-((--((((((-------.......))))..).)))............)))))))))))....)))))) ( -12.34)
>consensus
________CCAACAAG_____AACUUAUACUAGUUUU_GGUUCCGGAACUUUCACCUGUUUUCUGCCAGUGCAUCCU_GCUCGGCGUGUGGGCGGGUUUUUGUUGA
.........((((((.......(((......)))...........................((((((...((((((......)).)))).))))))...)))))). (-13.06 = -12.02 +  -1.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:41 2006