Locus 8060

Sequence ID X_DroMel_CAF1
Location 20,090,957 – 20,091,075
Length 118
Max. P 0.710382
window13228 window13229

overview

Window 8

Location 20,090,957 – 20,091,075
Length 118
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 94.38
Mean single sequence MFE -25.66
Consensus MFE -19.67
Energy contribution -19.57
Covariance contribution -0.11
Combinations/Pair 1.10
Mean z-score -3.06
Structure conservation index 0.77
SVM decision value 0.37
SVM RNA-class probability 0.710382
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20090957 118 + 22224390
UAAUUCCAACUCCCCAG--CCCCGGCCCAAUUUGGCUUUCUCAUUUCCAUUUAGGGGCUGCCCCCUUUUACGGCUCAAAUAUGUCGAGCCUUUCCACUUUGCACCUCCUUUCCCAGGAUA
....(((.......(((--((((((((......))))................)))))))...........(((((.........))))).........................))).. ( -27.59)
>DroSec_CAF1 849 116 + 1
UAAUUCCAACUCCCCAG--CCCCGGCCCAAUUUGGCUUUCUCAUUUCCAUUUAGGG-CAGC-CCCUUUUACGGCGCAAAUAUGUGAAGCCUUUCCACUUUACACCUCCUUUCCCAGGAUA
....(((.........(--(....((((.(..(((...........)))..).)))-).((-(........))))).....(((((((........)))))))............))).. ( -23.70)
>DroSim_CAF1 915 118 + 1
UAAUUCCAACUCCCCAGUCCCCCGGCCCAAUUUGGCUUUCUCAUUUCCAUUUAGGG-CAGC-CCCUUUUACGGCUCAAAUAUGUGAAGCCUUUCCGCUUUACACCUCCUUUCCCAGGAUA
................((((....((((.(..(((...........)))..).)))-)(((-(........))))......((((((((......))))))))............)))). ( -25.70)
>consensus
UAAUUCCAACUCCCCAG__CCCCGGCCCAAUUUGGCUUUCUCAUUUCCAUUUAGGG_CAGC_CCCUUUUACGGCUCAAAUAUGUGAAGCCUUUCCACUUUACACCUCCUUUCCCAGGAUA
....(((..............((((((......)))................((((......))))....)))........(((((((........)))))))............))).. (-19.67 = -19.57 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 20,090,957 – 20,091,075
Length 118
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 94.38
Mean single sequence MFE -33.70
Consensus MFE -27.21
Energy contribution -27.60
Covariance contribution 0.39
Combinations/Pair 1.08
Mean z-score -2.25
Structure conservation index 0.81
SVM decision value 0.06
SVM RNA-class probability 0.564551
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20090957 118 - 22224390
UAUCCUGGGAAAGGAGGUGCAAAGUGGAAAGGCUCGACAUAUUUGAGCCGUAAAAGGGGGCAGCCCCUAAAUGGAAAUGAGAAAGCCAAAUUGGGCCGGGG--CUGGGGAGUUGGAAUUA
..((((.((......(((.(((..(((...(((((((.....))))))).....(((((....))))).................)))..))).)))....--)).)))).......... ( -38.70)
>DroSec_CAF1 849 116 - 1
UAUCCUGGGAAAGGAGGUGUAAAGUGGAAAGGCUUCACAUAUUUGCGCCGUAAAAGGG-GCUG-CCCUAAAUGGAAAUGAGAAAGCCAAAUUGGGCCGGGG--CUGGGGAGUUGGAAUUA
..((((.....))))(((((((((((((.....)))))...)))))))).....((((-....-)))).................((((.((.(((....)--)).))...))))..... ( -31.30)
>DroSim_CAF1 915 118 - 1
UAUCCUGGGAAAGGAGGUGUAAAGCGGAAAGGCUUCACAUAUUUGAGCCGUAAAAGGG-GCUG-CCCUAAAUGGAAAUGAGAAAGCCAAAUUGGGCCGGGGGACUGGGGAGUUGGAAUUA
..((((.....)))).((((.((((......)))).)))).(((.(.((((...((((-....-))))..))))...).)))...((((......((((....))))....))))..... ( -31.10)
>consensus
UAUCCUGGGAAAGGAGGUGUAAAGUGGAAAGGCUUCACAUAUUUGAGCCGUAAAAGGG_GCUG_CCCUAAAUGGAAAUGAGAAAGCCAAAUUGGGCCGGGG__CUGGGGAGUUGGAAUUA
..((((.((......(((.(((..(((...(((((.........))))).....(((((....))))).................)))..))).)))......)).)))).......... (-27.21 = -27.60 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:28 2006