Locus 10247

Sequence ID 3R_DroMel_CAF1
Location 27,453,664 – 27,453,764
Length 100
Max. P 0.766297
window16330

overview

Window 0

Location 27,453,664 – 27,453,764
Length 100
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 78.13
Mean single sequence MFE -32.67
Consensus MFE -15.89
Energy contribution -16.71
Covariance contribution 0.82
Combinations/Pair 1.33
Mean z-score -2.03
Structure conservation index 0.49
SVM decision value 0.52
SVM RNA-class probability 0.766297
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27453664 100 + 27905053
GGAAAUGG-----------GUAUCCUGGCCAGAAACCAUUUAGUUGGCCGUCUCAUCUUCAGUUUCGCAGAUGGAUCGAUGGCCGAAUGUCUGCGAAUCGGCUAAUUGAUU
((.....(-----------((......))).....))..(((((((((((.............((((((((((..(((.....))).)))))))))).))))))))))).. ( -32.14)
>DroSec_CAF1 9665 103 + 1
GGAAAUGGC--------UGGUAUCCUGGCCAGAAACCAUUUAGUUGGCCGUCUCAUCUUCAGAUUCGCAGAUGGAUCGAUGGCCGAAUGACUGCGAAUCGGCUAAUUGAUU
((...((((--------..(....)..))))....))..(((((((((((......)....(((((((((.(.(.(((.....))).).)))))))))))))))))))).. ( -37.90)
>DroSim_CAF1 9535 103 + 1
GGAAAUGGG--------AUGUAUCCUGGCCAGAAACCAUUUAGUUGGCCGUCUUAUCUUCACAUUCGCAGAUGGAUCGAUGGCCGAAUGACUGCGAAUCGGCUAAUUGAUU
((...((((--------(....))))).)).........(((((((((((............((((((((.(.(.(((.....))).).)))))))))))))))))))).. ( -30.30)
>DroEre_CAF1 9598 84 + 1
GGAACU-----------UGGUAUCC----CAAGUUCCAUUUGG--GGGUGUCCCAUCUUCAGAUUCCCAGAUGGAUCGAUGCGC----------GAAUCGGCUAAUUGAUU
((((((-----------(((....)----))))))))((((((--(((((...)))))))))))...(((.(((.(((((....----------..)))))))).)))... ( -30.30)
>DroYak_CAF1 9679 111 + 1
GGGAAUGGAAGGGGGAUGGAUAUCCUGGCCAGAAACCAUUUGGAUGGGUAUCUCAUUUUCAGAUUCACAGAUGAAUCGAUGGCCGAAUGACUGCGUAUCUGCUAAUUGAUU
.....(((((.(..(((((((((((...(((((.....)))))..))))))).))))..)...))).))....((((((((((.(((((....))).)).))).))))))) ( -32.70)
>consensus
GGAAAUGG_________UGGUAUCCUGGCCAGAAACCAUUUAGUUGGCCGUCUCAUCUUCAGAUUCGCAGAUGGAUCGAUGGCCGAAUGACUGCGAAUCGGCUAAUUGAUU
.........................(((((.............(((((((((((((((.(......).))))))...))))))))).............)))))....... (-15.89 = -16.71 +   0.82)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:52:33 2006