Locus 2368

Sequence ID 3R_DroMel_CAF1
Location 6,728,350 – 6,728,460
Length 110
Max. P 0.820945
window3822

overview

Window 2

Location 6,728,350 – 6,728,460
Length 110
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.81
Mean single sequence MFE -22.33
Consensus MFE -13.68
Energy contribution -13.12
Covariance contribution -0.56
Combinations/Pair 1.26
Mean z-score -1.83
Structure conservation index 0.61
SVM decision value 0.68
SVM RNA-class probability 0.820945
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6728350 110 - 27905053
AGAACAAAAAAAAAAAGUAAGAAAUUCAAGGAAUUGAACGAUUUUUUUUUUCCAUUCAUCAUCGCAAAAUUUGCUUGAUGAAGCCAGCGGCA------UAAGUCGUUACAAGCAGU----
.......(((((((((((....(((((...))))).....)))))))))))...(((((((..(((.....))).)))))))((.((((((.------...))))))....))...---- ( -22.60)
>DroSec_CAF1 11644 100 - 1
AGAACAAAAAA------------UUCUAAGAAAUUGAACGAUUUU--UUUUCCAUUCAUCAUCGCAAAAUUUGCUUGAUGAAGCCAGCGGCA------UAAGUCGUUUUAGGUGCUUUAU
.(((.((((((------------((.(((....)))...))))))--)))))..(((((((..(((.....))).)))))))(((((((((.------...))))))...)))....... ( -20.90)
>DroEre_CAF1 14343 107 - 1
AGAACAAAAAA-------------GCCAAGAAAUUGAACGAAUUUUUUGUUCCAUUCAUCAUCGCAAAAUUUGCUUGAUGAAGCCAGCGGCAUGAUGAACAGUCGUUUUAGCUGCUCCAU
.((((((((((-------------..(((....)))......))))))))))..(((((((..(((.....))).)))))))...((((((..(((((....)))))...)))))).... ( -30.20)
>DroYak_CAF1 13045 100 - 1
AGAACAAAAAA-------------GCCAAGAAAUUGGACGAAUUUUUU-UCCCAUUCAUCAUCGCAAAAUUUGCUUGAUGAAGUCAGCGGCA------ACAGUCGUUUUAGCUGCUCCAU
.(((.((((..-------------(((((....)))).)...)))).)-))...(((((((..(((.....))).)))))))...(((((((------((....)))...)))))).... ( -23.70)
>DroAna_CAF1 12516 106 - 1
AAAACAAAAAAAAAA------AAACCCAAGAAAUUGAAAGAAUAUAU--UUUCAUUCAUCAUCGCAAAAUUUACUUGAUGAAGCCGGCGGCC------AUAGACGAUUUAGGUGCUUUAU
............(((------..(((....((((((...(((.....--.))).(((((((..............)))))))(((...))).------.....)))))).)))..))).. ( -14.24)
>consensus
AGAACAAAAAA_____________GCCAAGAAAUUGAACGAAUUUUUU_UUCCAUUCAUCAUCGCAAAAUUUGCUUGAUGAAGCCAGCGGCA______AAAGUCGUUUUAGGUGCUCCAU
........................(((((....)))(((((.............(((((((..(((.....))).)))))))(((...)))...........)))))...))........ (-13.68 = -13.12 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:37 2006