Locus 1947

Sequence ID X_DroMel_CAF1
Location 5,319,049 – 5,319,152
Length 103
Max. P 0.996831
window3164

overview

Window 4

Location 5,319,049 – 5,319,152
Length 103
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 76.92
Mean single sequence MFE -27.40
Consensus MFE -19.00
Energy contribution -19.19
Covariance contribution 0.19
Combinations/Pair 1.13
Mean z-score -2.50
Structure conservation index 0.69
SVM decision value 2.75
SVM RNA-class probability 0.996831
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5319049 103 - 22224390
GCCACACACAAAUUGGCAGCACCUUGCGUGUCUGAGGCACAUA----AAAAGGAUUAGAUGUCUGCCUCGACAUGACAGCC---CCGAAA--------AAAAGAAAAUUG--UCUGCCAA
............(((((((((..(((((((((.((((((.(((----............))).)))))))))))).)))..---.(....--------....).....))--.))))))) ( -27.10)
>DroSim_CAF1 46947 106 - 1
GCCACACACAAAUUGGCAGCACCUUGCGUGUCUGGGGCACAUA----AAAAGGAUUAGAUGUCUGCCUCAACAUGACAGCCGCGCCGAAA--------AAAAAAAANNNN--NNNNNNNN
............(((((.((...((((((((.(((((((.(((----............))).)))))))))))).)))..)))))))..--------............--........ ( -24.30)
>DroEre_CAF1 58135 116 - 1
GCCACACACAAAUUGGCAGCACCUUGCGUGUCUGGGGCGCAUA----AAAAGGAUUAGAUGUCUGCCUCGACAUGACAGGCGUGCCAAAAAACAAAAAAAACAAAAAAAAUGGCAGCCGA
............(((((.((((((((((((((.(((((((((.----...........))))..))))))))))).)))).))))................((.......))...))))) ( -32.10)
>DroYak_CAF1 58475 107 - 1
GCCACACACAAAUUGGCAGCACCUUGCGUGUCUGUGGCACAUAUGUAUAAAGGAUUAGAUGUCUGCCUCAACAUGACAGG-----------ACAAAAAAAAAAAAAAAAA--CCUGCCAA
............(((((((...(((((((((.((.((((.((((.((........)).)))).)))).))))))).))))-----------...................--.))))))) ( -26.10)
>consensus
GCCACACACAAAUUGGCAGCACCUUGCGUGUCUGGGGCACAUA____AAAAGGAUUAGAUGUCUGCCUCAACAUGACAGCC___CCGAAA________AAAAAAAAAAAA___CUGCCAA
((((.........)))).....(((((((((.((((((((((................))))..))))))))))).))))........................................ (-19.00 = -19.19 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:31 2006