Locus 3958

Sequence ID 3R_DroMel_CAF1
Location 10,708,415 – 10,708,509
Length 94
Max. P 0.596886
window6345

overview

Window 5

Location 10,708,415 – 10,708,509
Length 94
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 84.66
Mean single sequence MFE -15.27
Consensus MFE -13.11
Energy contribution -12.31
Covariance contribution -0.80
Combinations/Pair 1.22
Mean z-score -1.50
Structure conservation index 0.86
SVM decision value 0.13
SVM RNA-class probability 0.596886
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10708415 94 - 27905053
GAACAACAAGCAGUUCAACAAGCUUUUUACAUUUAGUAAUGUAAGAAAAGAGGGCAAAAAAUGAACUGCAAUCGUGACGAAGUCUGUAAAAUAU---
..(((((..((((((((....((((((((((((....)))))))))......)))......))))))))..(((...))).)).))).......--- ( -19.70)
>DroPse_CAF1 2001 93 - 1
GAAUAACAAGCAGUUUAACAAGCUUUUUACAUUCAGUAAUGUAAAGAAAGAUGGCAAGAAAUAGACUGUGC----UAAAAACACCAUAAAAUACAUA
.........((((((((....((((((((((((....)))))))))......)))......))))))))..----...................... ( -12.90)
>DroSec_CAF1 2119 94 - 1
CAACAACAAGCAGUUCAACAAGCUUUUUACAUUCAGUAAUGUAAGGAAAGAGGGCAAAAAAUAAACUGCAAUCGUGACGAAGUCUGUAAAAUAU---
.........((((........((((((((((((....))))))))))..((..(((..........)))..))))........)))).......--- ( -14.39)
>DroSim_CAF1 3407 94 - 1
CAACAACAAGCAGUUCAACAAGCUUUUUACAUUUAGUAAUGUAAGGAAAGAGGGCAAAAAAUAAACUGCAAUCGUGACGAAGUCUGUAAAAUAU---
.........((((........((((((((((((....))))))))))..((..(((..........)))..))))........)))).......--- ( -15.19)
>DroYak_CAF1 3455 94 - 1
CAACAACAAGCAGUUCAACAAGCUUUUUACAUUUAGUAAUGUAAGGAAAGAAGGCAAAAAAUAAACUGCAAUCGUGACGAAGUCUGUUAAAUAU---
.((((((..((((((......((((((((((((....))))))......))))))........))))))..(((...))).)).))))......--- ( -15.74)
>DroPer_CAF1 2011 90 - 1
GAAUAACAAGCAGUUUAACAAGCUUUUUACAUUUAGUAAUGUAAAGAAAGAUGGCAAGAAAUAGACUGUGC----UAAAAACACCAUAAAAUAC---
.........((((((((....((((((((((((....)))))))))......)))......))))))))..----...................--- ( -13.70)
>consensus
CAACAACAAGCAGUUCAACAAGCUUUUUACAUUUAGUAAUGUAAGGAAAGAGGGCAAAAAAUAAACUGCAAUCGUGACGAAGUCUGUAAAAUAU___
.........((((((......((((((((((((....)))))))))......)))........))))))............................ (-13.11 = -12.31 +  -0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:28 2006