Locus 5558

Sequence ID 3R_DroMel_CAF1
Location 14,697,606 – 14,697,723
Length 117
Max. P 0.815301
window9061

overview

Window 1

Location 14,697,606 – 14,697,723
Length 117
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 88.33
Mean single sequence MFE -31.24
Consensus MFE -26.47
Energy contribution -26.70
Covariance contribution 0.23
Combinations/Pair 1.11
Mean z-score -2.20
Structure conservation index 0.85
SVM decision value 0.66
SVM RNA-class probability 0.815301
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14697606 117 - 27905053
CCUCAAGGAAGAUAAAG---AAGCCUUGACGCUUAAAUGUUCUUUCAAAACUAAUUCACUAGAGGAUAUUUCUUCAAGUGCAGCGAUGAAAGUAUCUGCAAAAGGGCGGCCAUAGGAAUA
((((((((.........---...))))))(((((...(((.((((((...((....((((.(((((....))))).)))).))...)))))).....)))...)))))......)).... ( -26.90)
>DroSec_CAF1 116444 119 - 1
CCUCAAGGAAAAUAGAGAUGAAGCCUUUCCGCUUAAAUGUGCUUUCAAAGCUAGUUCACUGGAAGAU-UUUCUUCAAGUGUAGCGAUGAAAGUAUCUGCAAUAGGGCGGCCAUAGGAAUA
.(((..........)))......(((..(((((..(.((((((((((..((((...((((.((((..-...)))).))))))))..)))))))....))).)..)))))....))).... ( -33.30)
>DroSim_CAF1 120829 120 - 1
CUUCAAGGAAGAUAGAGAUGAAUCCAUUCCGAAUAAAUAUGCUUUCAAAGCUAAUUCACUGGAAGAUAUUUCUUCAAGUGUAGCGAUGAAAGUAUCUGCAAAAGGGCGGCCAUAGGAAUA
......(((.............)))(((((........(((((((((..((((...((((.(((((....))))).))))))))..)))))))))((((......)))).....))))). ( -33.52)
>consensus
CCUCAAGGAAGAUAGAGAUGAAGCCUUUCCGCUUAAAUGUGCUUUCAAAGCUAAUUCACUGGAAGAUAUUUCUUCAAGUGUAGCGAUGAAAGUAUCUGCAAAAGGGCGGCCAUAGGAAUA
(((...((............((((......))))....(((((((((..((((...((((.(((((....))))).))))))))..)))))))))((((......))))))..))).... (-26.47 = -26.70 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:03 2006