Locus 3136

Sequence ID 3R_DroMel_CAF1
Location 8,276,104 – 8,276,220
Length 116
Max. P 0.564336
window5084

overview

Window 4

Location 8,276,104 – 8,276,220
Length 116
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 75.93
Mean single sequence MFE -22.39
Consensus MFE -13.17
Energy contribution -12.73
Covariance contribution -0.43
Combinations/Pair 1.19
Mean z-score -1.68
Structure conservation index 0.59
SVM decision value 0.06
SVM RNA-class probability 0.564336
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8276104 116 - 27905053
GUUAUGUUUCUAAAGAAAUAUUAAUUGAAUAAAACCGAUUCCACAAUAAACAAUCAUAACGUGCUAGCUAU----AAAUCAGUUUGAACCCAUGGGUUGUGGGAAAACCAGUGUAAGAAA
...(((((((....))))))).................((((((..(((((.........((....))...----......)))))((((....))))))))))................ ( -16.17)
>DroEre_CAF1 679 109 - 1
-----------AAAGAUGCAUUCAUUGAAUUAAACUGAUUUUACUAUAGAAAAUCAUAACGUGUCAGUUAUAUGAAAAUUAGUUUGAACCUAUGGGGUGUGGGAAAAGAAGUGUCAAAAU
-----------...(((((.(((......(((((((((((((..(((((.....(((...)))....)))))..))))))))))))).(((((.....)))))....))))))))..... ( -23.80)
>DroYak_CAF1 735 109 - 1
-----------ACAGAUGCACUAAUUGAAUAAAACUGAUUCUACGAUAGACAAUCAUAACGUGUCUGUUAUGUGUAAAUCAGUUUGAACCUAUGGGUUGUGGGAAAAUAAGUGUAAGAAA
-----------.....((((((.(((.....(((((((((.(((((((((((.........))))))))....))))))))))))...(((((.....)))))..))).))))))..... ( -27.20)
>consensus
___________AAAGAUGCAUUAAUUGAAUAAAACUGAUUCUACAAUAGACAAUCAUAACGUGUCAGUUAU_UG_AAAUCAGUUUGAACCUAUGGGUUGUGGGAAAACAAGUGUAAGAAA
.................(((((.........(((((((((.....((((.....(((...)))....)))).....)))))))))...(((((.....)))))......)))))...... (-13.17 = -12.73 +  -0.43)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:57 2006