Locus 6369

Sequence ID 2R_DroMel_CAF1
Location 19,951,915 – 19,952,031
Length 116
Max. P 0.712105
window10173

overview

Window 3

Location 19,951,915 – 19,952,031
Length 116
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 85.61
Mean single sequence MFE -33.43
Consensus MFE -21.52
Energy contribution -21.70
Covariance contribution 0.19
Combinations/Pair 1.10
Mean z-score -2.05
Structure conservation index 0.64
SVM decision value 0.38
SVM RNA-class probability 0.712105
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19951915 116 + 20766785
ACGCUUUCAAGUGCAGCCACUUUGAUGAGCUCCCGGGAGCCGUAUCAAAGUGUCCGUAUUGGA-AGUCAUUUGCAUACAAGGGUUCUAUUGUAUAUUCUCCAAUAUAGCUUACAGCG
.((((.....(((.(((((((((((((.((((....))))..))))))))))...((((((((-.((.....))((((((........))))))....)))))))).)))))))))) ( -36.20)
>DroSec_CAF1 34932 108 + 1
ACGCUUUCAAGUGCAGCCACUUUGAUGAGCUCCCGGGAGCCAUUGA---AGGUCCGUAUUGGA-AGUCAUUUGCAUACGAGAGUUCU-----GUAUUCUCCAAUAUAGCUUACAGCG
.((((.....(((.(((..(((..(((.((((....)))))))..)---))....((((((((-.(.....((((.((....))..)-----)))..))))))))).)))))))))) ( -33.60)
>DroSim_CAF1 37212 111 + 1
ACGCUUUCAAGUGCAGCCACUUUGAUGAGCUCCCGGGAGCCAUUGAAGAAGGUCCGUAUUGGA-AGUCAUUUGCAUACGAGAGUUCU-----GUAUGCUCCAAUAUAGCUUACAGUG
.((((...((((...(((.(((..(((.((((....)))))))..)))..)))..((((((((-........((((((.((....))-----)))))))))))))).))))..)))) ( -36.20)
>DroYak_CAF1 32790 106 + 1
ACGCUUUCAAGUGCAGGCACUUUGAUGAGCUCUCGGCAGCCAUUGA---AGCUCUGUAUUGGAAAGUCAUUUGCUUACAACAGUU--------UAUUCUCCAAUAUAGCUUACAAUG
..(((((((((((....))).)))).))))..........((((((---((((..((((((((.(((...(((.......)))..--------.))).))))))))))))).))))) ( -27.70)
>consensus
ACGCUUUCAAGUGCAGCCACUUUGAUGAGCUCCCGGGAGCCAUUGA___AGGUCCGUAUUGGA_AGUCAUUUGCAUACAAGAGUUCU_____GUAUUCUCCAAUAUAGCUUACAGCG
.((((...((((...(((...(..(((.((((....)))))))..)....)))..((((((((.............((....))..............)))))))).))))..)))) (-21.52 = -21.70 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:23 2006