Locus 400

Sequence ID X_DroMel_CAF1
Location 1,175,968 – 1,176,087
Length 119
Max. P 0.777982
window611

overview

Window 1

Location 1,175,968 – 1,176,087
Length 119
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 77.92
Mean single sequence MFE -23.09
Consensus MFE -12.38
Energy contribution -12.95
Covariance contribution 0.56
Combinations/Pair 1.21
Mean z-score -2.21
Structure conservation index 0.54
SVM decision value 0.55
SVM RNA-class probability 0.777982
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1175968 119 - 22224390
UCAUUGCAUUAAUGCAAACUUUUGAAUCCCCC-CCAUGGCAUGUAUGUAAGUUCAGAUGCAAAAGCACCCUUUUGCUCCCCUUUUUGCCCCACAUCCCCCGUCCCCCAUUUCAUCGGGGU
...(((((....)))))...............-....((.((((..(((((.......(((((((....))))))).......)))))...)))).)).....((((........)))). ( -24.14)
>DroSec_CAF1 11938 111 - 1
UCAUUGCAUAAAUGCAAACUUUUGAAUCUCCCCCCCC--------AGUAAGUUCAGAUGCAAAAGCACCCUUUUGCUUCCCU-UUUGCCCCACAUCCUCCGUCCCCCAUUUCAUCGGGGA
...(((((....)))))....................--------.(((((....((.(((((((....))))))).))...-)))))...............((((........)))). ( -21.00)
>DroSim_CAF1 27011 99 - 1
UCAUUGCAUAAAUGCAAACUUUUGAAUCUCCC-CCCC--------AGUAAGUUCAGAUGCAAAAUCACCCU------------UUUGCCCCACAUCCUCCGUCCCCCAUUUCAUCGGGGA
...(((((....)))))...((((((.((..(-....--------.)..)))))))).((((((......)------------)))))...............((((........)))). ( -18.00)
>DroEre_CAF1 11141 113 - 1
UCAUUCUAUGAAUGCAAACUUUUGAAUCUCCC-CCCGGGG--GAACGUAAGUUCAGAGGCAAAGGCACCCUUUUGCUCCCCU-CUCGUCCU---UCCCUCUCCGCCAAUUUCAUAGGGGA
...(((((((((.((..............(((-....)))--((((....))))(((((....((((......))))..)))-))......---.........))....))))))))).. ( -29.20)
>consensus
UCAUUGCAUAAAUGCAAACUUUUGAAUCUCCC_CCCC________AGUAAGUUCAGAUGCAAAAGCACCCUUUUGCUCCCCU_UUUGCCCCACAUCCCCCGUCCCCCAUUUCAUCGGGGA
...(((((....)))))...(((((((.......................))))))).(((((((....)))))))....................(((((.............))))). (-12.38 = -12.95 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:38 2006