Locus 1881

Sequence ID X_DroMel_CAF1
Location 5,213,850 – 5,213,953
Length 103
Max. P 0.897199
window3054

overview

Window 4

Location 5,213,850 – 5,213,953
Length 103
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.88
Mean single sequence MFE -25.96
Consensus MFE -16.37
Energy contribution -16.05
Covariance contribution -0.32
Combinations/Pair 1.26
Mean z-score -1.91
Structure conservation index 0.63
SVM decision value 1.00
SVM RNA-class probability 0.897199
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5213850 103 - 22224390
UUUUAAUUCCGUAAAAUUGUAAACAUGUUUUAAAC----------------CCUAAGAUACA-AAAUCACGAUUAUAUUCCUCUGUGUAUGUGCGUUUGUGUGCGCUGAGGCAUGGAAAU
......((((((..((((((.....(((((((...----------------..)))))))..-.....)))))).....((((.(((((..(......)..))))).)))).)))))).. ( -22.30)
>DroSec_CAF1 33891 119 - 1
UUUAAAUUCCAUAAAAUUGUAAAAGUGUUUUAACACAUUUUUAAAUAUUUACCUAAGAUACA-AAAUCACGGUUAUUUCCCUCUGUGUAUGUGCGUUUGUGUGCGCUGAGGCAUGGAAAU
......((((((.((((..(((((((((......)))))))))...))))(((...(((...-..)))..)))......((((.(((((..(......)..))))).)))).)))))).. ( -26.70)
>DroSim_CAF1 27552 119 - 1
UUUAAAUUCCAAAAAAUUGUAUACGUCUUUUAACACAUUUUUGGGUAUUUAUCUAAGAUACC-AAAUCACGAUUAUUUCCCUCUGUGUAUGUGCGUUUGUGUGCGCUGAGGCAUGGAAAU
......(((((...((((((...............((....))(((((((.....)))))))-.....)))))).....((((.(((((..(......)..))))).))))..))))).. ( -27.30)
>DroEre_CAF1 37291 112 - 1
UCGUAAUUCUAUAAAAUCGUGAUCGUAUU--------UUUUUGCGUAUUUUUCUAAGAUACAUAAAUCACAAUUAUUUCCCUCUGUGUAUGUGCGUUUGUGUGCGCUGAGGCAUGGAAAU
......((((((......(((((.(((..--------....)))((((((.....))))))....))))).........((((.(((((..(......)..))))).)))).)))))).. ( -26.40)
>DroYak_CAF1 34626 108 - 1
UCUUAAUUCCACAAAGUUGUG----UACG--------UUUUUACGUAUUUAUCUAAACAACAUAAAUCACAAUUAUUCCCCUCUGUGUACGAACGUUUGUGUGCGCUGAGGCAUGGAAAU
......(((((....((((((----((((--------(....))))))........)))))..................((((.(((((((........))))))).))))..))))).. ( -27.10)
>consensus
UUUUAAUUCCAUAAAAUUGUAAACGUAUUUUAA____UUUUUACGUAUUUAUCUAAGAUACA_AAAUCACGAUUAUUUCCCUCUGUGUAUGUGCGUUUGUGUGCGCUGAGGCAUGGAAAU
......((((((..((((((................................................)))))).....((((.(((((((........))))))).)))).)))))).. (-16.37 = -16.05 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:53 2006