Locus 4843

Sequence ID 3R_DroMel_CAF1
Location 12,687,038 – 12,687,128
Length 90
Max. P 0.928288
window7934

overview

Window 4

Location 12,687,038 – 12,687,128
Length 90
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 78.08
Mean single sequence MFE -12.47
Consensus MFE -4.64
Energy contribution -5.60
Covariance contribution 0.96
Combinations/Pair 1.08
Mean z-score -2.33
Structure conservation index 0.37
SVM decision value 1.19
SVM RNA-class probability 0.928288
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12687038 90 + 27905053
CUCUUU-UUCCCAGUCGCCAUUUUUCUCCAUAUUGAAAAAAAUUAUUAGGAACUCGGCAUGAUAUUUCUUAAAAA-AUGUUCUGGAUCCAAU
......-...((((..(((.((((((........)))))).........(....))))..(((((((......))-)))))))))....... ( -13.50)
>DroSec_CAF1 63035 76 + 1
CUCUUU-UUCCCAGUCGCCAUUUUUCUCCACAUUGAAACAAAUUAUUGGGAACUCUUCAUGAUAUUUCUUUAAAA-AU--------------
......-((((((((.......((((........))))......)))))))).......................-..-------------- ( -10.12)
>DroSim_CAF1 63708 76 + 1
CUCUUU-UUCCCAGUCGCCAUUUUUCUCCACAUUGAAACAAAUUAUUGGGAACUCUUCAUGAUAUUUCUUUAAAA-AU--------------
......-((((((((.......((((........))))......)))))))).......................-..-------------- ( -10.12)
>DroEre_CAF1 67548 90 + 1
CUCUUU-UUCCCAGACGCCAUUUUACUCCACAUUCAAACAAAAGUUUGGGAACUUGGCAUGGCAUUUCUUUAAAA-AUGUGCUUCAUUUCAU
......-(((((((((...........................)))))))))...(((...((((((......))-)))))))......... ( -14.83)
>DroYak_CAF1 56506 92 + 1
CUCUUUUUUCCCAGACGCCAUUUUUCCCCACAUUCAAAUAAAUGCUUGGAAACUUGGCAUGAAAUUUCUUUAAAAUAUAUUCUUUAUUCCAU
................((((..(((((...((((......))))...)))))..)))).................................. ( -13.80)
>consensus
CUCUUU_UUCCCAGUCGCCAUUUUUCUCCACAUUGAAACAAAUUAUUGGGAACUCGGCAUGAUAUUUCUUUAAAA_AU_U_CU__AU___AU
.......((((((((.......((((........))))......))))))))........................................ ( -4.64 =  -5.60 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:11 2006