Locus 4175

Sequence ID X_DroMel_CAF1
Location 10,961,381 – 10,961,485
Length 104
Max. P 0.529658
window6853

overview

Window 3

Location 10,961,381 – 10,961,485
Length 104
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 90.48
Mean single sequence MFE -36.78
Consensus MFE -27.36
Energy contribution -27.48
Covariance contribution 0.12
Combinations/Pair 1.15
Mean z-score -1.60
Structure conservation index 0.74
SVM decision value -0.01
SVM RNA-class probability 0.529658
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10961381 104 + 22224390
UUGCAGCUGCAUUCUCUCCUGCUCCUGGACCCUCUGCAGCUCCCGC------ACCCGCUCCCUCUCCUGAUGGGCCAUCUGAGCGGGCACCAUGAGCACCGAGGCUCGCA
....(((((((.....(((.......))).....)))))))...((------.(((((((....(((....)))......)))))))......((((......)))))). ( -36.20)
>DroSec_CAF1 6184 110 + 1
UUGCAGCUGCAUCCUCUCCUGCUCCUGGACCCUCUGCAGCUCCCGCUCGCGCUCCCGCUCCCUCUCCUGAUGGGCCAUCUGAGUGGGCACCAUGAGCACCGAGGCUCGCA
.((((((((((.....(((.......))).....)))))))((((((((((....))).(((((....)).)))......)))))))......((((......))))))) ( -40.00)
>DroSim_CAF1 6306 110 + 1
UUGCAGCUGGAUCCUCUCCUGCUCCUGGACCCUCUGCAGCUCCCGCUCGCGCUCCCGCUCCCUCUCCUGAUGGGCCAUCUGAGCGGGCACCAUGAGCACCGAGGCUCGCA
.(((((..((.(((............))).)).)))))((.((((((((((....))).(((((....)).)))......)))))))......((((......)))))). ( -40.80)
>DroEre_CAF1 6070 104 + 1
CUGCAGCUGCAUUCUCUCCUGCUCCUGGACCCUCUGCAGCUCCCGC------UCCCGUUCCCUGUCCUGAUGGGCCAUCUGAGCGGGCACCAUGAGAACCGAUGCUCUCA
.((((((((((.....(((.......))).....))))))).((((------((..((..(((((....)))))..))..)))))))))...(((((........))))) ( -34.10)
>DroYak_CAF1 6067 104 + 1
UUGCAGCUGUAUCCUCUCCUGCUCCUGAACCCUUUGCAGCUCCCGC------UCCCGUUCCCUUUCCUGAUGGGCCAUCUGAGCGGGCGCCAUGAGGACCGAGGCUCUCA
....((((...(((((...(((.............)))((.(((((------((.....(((.........)))......))))))).))...)))))....)))).... ( -32.82)
>consensus
UUGCAGCUGCAUCCUCUCCUGCUCCUGGACCCUCUGCAGCUCCCGC______UCCCGCUCCCUCUCCUGAUGGGCCAUCUGAGCGGGCACCAUGAGCACCGAGGCUCGCA
.((((((((((.....(((.......))).....))))))).............((((((....(((....)))......)))))))))....((((......))))... (-27.36 = -27.48 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:12 2006