Locus 1164

Sequence ID X_DroMel_CAF1
Location 3,476,503 – 3,476,600
Length 97
Max. P 0.877854
window1870

overview

Window 0

Location 3,476,503 – 3,476,600
Length 97
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 72.61
Mean single sequence MFE -25.20
Consensus MFE -14.81
Energy contribution -15.03
Covariance contribution 0.22
Combinations/Pair 1.12
Mean z-score -1.63
Structure conservation index 0.59
SVM decision value 0.90
SVM RNA-class probability 0.877854
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3476503 97 + 22224390
GACCGUAGCUGUGCGAACACGCUGCAAAUUGCCAUUUCAUUUGCAUCUGUUGAUGGAAUUUUGCGGUGGAAG-CCGCCCACCCUCCUCCUUCCUCCCC--------
....((((((((....))).))))).....((.((((((((.((....)).))))))))...))(((((...-....)))))................-------- ( -25.00)
>DroPse_CAF1 45582 96 + 1
--CCAUG-----GCG--CACAUGGCAAAUUGCCAUUUCAUUUGCAUCUGUUGAUGGCAUUUUGCGGUUGCAU-CCAACAACUAUGUUGCCUUCUCAUCCUCUGAGU
--....(-----(((--.((((((((((.(((((((.((........))..))))))).))))).((((...-.))))...)))))))))..((((.....)))). ( -28.90)
>DroSec_CAF1 37596 89 + 1
GACCGUAGCUGUGCGAACACGCUGCAAAUUGCCAUUUCAUUUGCAUCUGUUGAUGGAAUUUUGCGGUGGAAG-CCGCCCACUACCCUCCU----------------
((..((((.((.(((....(((((((((...(((((.((........))..)))))...)))))))))....-.))).))))))..))..---------------- ( -27.30)
>DroEre_CAF1 40326 95 + 1
GACCAUAGCUGUGCGAACACGCUGCAAAUUGCCAUUUCAUUUGCAUCUGUUGAUGGAAUUUUGCGGUGGAAG-CCACCCACUCC--CACUUCCACUCC--------
......((((((....))).)))(((((...(((((.((........))..)))))...)))))((((((((-...........--..))))))))..-------- ( -24.32)
>DroYak_CAF1 39298 84 + 1
GACCAUAGCUGUGCGAACACGCUGCAAAUUGCCAUUUCAUUUGCAUCUGUUGAUGGAAUUUUGCGGUGAAAAACCUCCCACU--------------CC--------
..........(((.((...(((((((((...(((((.((........))..)))))...))))))))).......)).))).--------------..-------- ( -18.60)
>DroPer_CAF1 47109 96 + 1
--CCAUG-----GCG--CACAUGGCAAAUUGCCAUUUCAUUUGCAUCUGUUGAUGGCAUUUUGCGGUUGCAU-CCAACUACUUUGUUGCCUUCUCACCCUCGGAGU
--....(-----(((--((.((.(((((.(((((((.((........))..))))))).))))).)))))..-..(((......))))))..(((.......))). ( -27.10)
>consensus
GACCAUAGCUGUGCGAACACGCUGCAAAUUGCCAUUUCAUUUGCAUCUGUUGAUGGAAUUUUGCGGUGGAAG_CCACCCACUAU__UCCUU_CUC_CC________
...................(((((((((...(((((.((........))..)))))...)))))))))...................................... (-14.81 = -15.03 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:52 2006