Locus 3564

Sequence ID 2R_DroMel_CAF1
Location 11,882,405 – 11,882,511
Length 106
Max. P 0.661201
window5804

overview

Window 4

Location 11,882,405 – 11,882,511
Length 106
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.10
Mean single sequence MFE -22.60
Consensus MFE -14.79
Energy contribution -14.57
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.36
Structure conservation index 0.65
SVM decision value 0.27
SVM RNA-class probability 0.661201
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11882405 106 + 20766785
UUUCAUUAAAAAUUUAUGAAAUAAAGGCACAUCCAGGAUGGCGUAUUAAAAUUUGAUAGUCUGCUCCGUGUGCAUG--UGUGUCUUUUUU-----UUU-------UUUUUUUACUUGUGU
......((((((.....((((.((((((((((((((((.(((.(((((.....))))))))...))).)).)...)--))))))))).))-----)).-------..))))))....... ( -20.00)
>DroPse_CAF1 21059 89 + 1
UUUCAUUAAAAAUUUAUGAAAUGAAGGCACAGCCGGGCGGGCGUAUUAAAAUUUGAUAGUCUGCUCUGAAUGUAUGCAUGUGUCUGU-------------------------------GU
((((((.........))))))...((((((....((((((((.(((((.....)))))))))))))...(((....)))))))))..-------------------------------.. ( -23.90)
>DroSec_CAF1 22837 109 + 1
UUUCAUUAAAAAUUUAUGAAAUAAAGGCACAUCCACGAUGGCGUAUUAAAAUUUGAUAGUCUGCUCCGUGUGCAUG--UGUGUCUGUUGUUGUGUUUU---------UUUUUACUUGUGU
.......(((((..((..(.....((((((((.((((..((((.((((........)))).))))...))))...)--)))))))....)..))..))---------))).......... ( -21.00)
>DroEre_CAF1 24953 111 + 1
UUUCAUUAAAAAUUUAUGAAAUAAAGGCACAGCCAGGAUGGCGUAUUAAAAUUUGAUAGUCUGCUUCGUGUGCAUG--UGUGUCUGUUGUUCUCAUUU-------UUUUUUUACUUAUAC
......((((((...((((((((((((((((((((.((.((((.((((........)))).)))))).)).))...--))))))).))))).))))..-------..))))))....... ( -23.60)
>DroYak_CAF1 23019 118 + 1
UUUCAUUAAAAAUUUAUGAAAUAAAGGCACAGCCAGGAUGGCGUAUUAAAAUUUGAUAGUCUGCUCCGUGUGCAUG--UGUGUCUGUUGUUCUCCUUUUUUAAUUUUUUUUUACUUUUAC
....((((((((.....(((....((((((((((((((.(((.(((((.....))))))))...))).)).))...--)))))))....)))....))))))))................ ( -23.20)
>DroPer_CAF1 22428 89 + 1
UUUCAUUAAAAAUUUAUGAAAUGAAGGCACAGCCGGGCGGGCGUAUUAAAAUUUGAUAGUCUGCUCUGAAUGUAUGCAUGUGUCUGU-------------------------------GU
((((((.........))))))...((((((....((((((((.(((((.....)))))))))))))...(((....)))))))))..-------------------------------.. ( -23.90)
>consensus
UUUCAUUAAAAAUUUAUGAAAUAAAGGCACAGCCAGGAUGGCGUAUUAAAAUUUGAUAGUCUGCUCCGUGUGCAUG__UGUGUCUGUUGU_____UUU_________UUUUUACUU_UGU
((((((.........))))))...(((((((........(((.(((((.....))))))))(((.......)))....)))))))................................... (-14.79 = -14.57 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:38 2006