Locus 644

Sequence ID X_DroMel_CAF1
Location 1,802,215 – 1,802,305
Length 90
Max. P 0.981784
window1035

overview

Window 5

Location 1,802,215 – 1,802,305
Length 90
Sequences 5
Columns 101
Reading direction reverse
Mean pairwise identity 81.85
Mean single sequence MFE -26.74
Consensus MFE -18.68
Energy contribution -19.80
Covariance contribution 1.12
Combinations/Pair 1.09
Mean z-score -2.65
Structure conservation index 0.70
SVM decision value 1.90
SVM RNA-class probability 0.981784
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1802215 90 - 22224390
AAAGGUCGCAACGUGAUCGUUCCGUCU---UUUCUGUUGGCUGAAGAAAGCGGCUAAAACUGCAAGAGUCGCUAAAAAG--------ACGGAGCAUUGAAA
...((((((...))))))(((((((((---(((....((((.((.....((((......)))).....)))))))))))--------)))))))....... ( -31.40)
>DroSec_CAF1 10745 90 - 1
AAAGGUCGCAACGUGAUCGUUCCGUAU---UUUCUGUUGGCUGAAGAAAGCGGCUAAAACAGCAAGAGUCGCUAAAAAG--------GCGGAGCAGUGAAA
...((((((...))))))(((((((.(---((((........))))).(((((((...........)))))))......--------)))))))....... ( -27.80)
>DroSim_CAF1 10803 90 - 1
AAAGGUCGCAACGUGAUCGUUCCGUAU---UUUCUGUUGGCUGAAGAAAGCGGCUAAAACUGCAAGAGUCGCUAAAAAG--------ACGGAGCAUCGAAA
...((((((...))))))(((((((.(---((((........))))).(((((((...........)))))))......--------)))))))....... ( -27.50)
>DroEre_CAF1 10559 80 - 1
AAAGGUCGCAACGUGAUCGUUCCAUCGCUG-------------AAGAAAGCGUCCAAAACUGCAAGAGUCGCUAAAAAG--------ACGGAGCGAUGAAA
...((((((...))))))(((((..((((.-------------.....))))...............(((........)--------)))))))....... ( -21.30)
>DroYak_CAF1 11024 101 - 1
AAAGGUCGCAACGUGAUCGUUCCGUCGCUGCUUCUGAUGGCCAAAGAAAGCGACCAAAACUGCAAGAGUCGCUAAAAAGACGAAAAGACGAAGCGAUGAAA
....(((((..(((..(((((((((((.......))))))........(((((((..........).)))))).....)))))....)))..))))).... ( -25.70)
>consensus
AAAGGUCGCAACGUGAUCGUUCCGUCU___UUUCUGUUGGCUGAAGAAAGCGGCUAAAACUGCAAGAGUCGCUAAAAAG________ACGGAGCAAUGAAA
...((((((...))))))(((((((......((((.........))))((((((.............))))))..............)))))))....... (-18.68 = -19.80 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:06 2006