Locus 1996

Sequence ID X_DroMel_CAF1
Location 5,490,436 – 5,490,538
Length 102
Max. P 0.919693
window3252

overview

Window 2

Location 5,490,436 – 5,490,538
Length 102
Sequences 3
Columns 102
Reading direction forward
Mean pairwise identity 96.70
Mean single sequence MFE -34.57
Consensus MFE -29.65
Energy contribution -29.77
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -3.38
Structure conservation index 0.86
SVM decision value 1.13
SVM RNA-class probability 0.919693
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5490436 102 + 22224390
UUCCAUGCUCUUUUUGGCUUUUUGGUCGGUCGGUGGACAGAGCAGCUUCAGCUUCGUAGUUUUUCCAUGCUUUUCCAUGGCCAUUUGCAAGCCAGAAUUGUC
......((...(((((((((...(((.(((((.((((.((((((.....((((....))))......))))))))))))))))))...)))))))))..)). ( -30.50)
>DroSec_CAF1 15341 99 + 1
UUCCAUGCUCUUUUUGGCUUGUUGGU-GGUCGGUGGGCA--GCAGCUUCAGCUUCGUAGUUUUUCCAUGCUUUUCCAUGGCCAUUUGCAAGCCAGAAUUGUC
......((...(((((((((((..((-(((((.((((.(--(((.....((((....))))......))))..)))))))))))..)))))))))))..)). ( -36.60)
>DroSim_CAF1 8758 99 + 1
UUCCAUGCUCUUUUUGGCUUGUUGGU-GGUCGGUGGGCA--GCAGCUUCAGCUUCGUAGUUUUUCCAUGCUUUUCCAUGGCCAUUUGCAAGCCAGAAUUGUC
......((...(((((((((((..((-(((((.((((.(--(((.....((((....))))......))))..)))))))))))..)))))))))))..)). ( -36.60)
>consensus
UUCCAUGCUCUUUUUGGCUUGUUGGU_GGUCGGUGGGCA__GCAGCUUCAGCUUCGUAGUUUUUCCAUGCUUUUCCAUGGCCAUUUGCAAGCCAGAAUUGUC
......((...(((((((((((..((.(((((.((((....(((.....((((....))))......)))...)))))))))))..)))))))))))..)). (-29.65 = -29.77 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:48 2006