Locus 1917

Sequence ID X_DroMel_CAF1
Location 5,290,989 – 5,291,106
Length 117
Max. P 0.935581
window3117

overview

Window 7

Location 5,290,989 – 5,291,106
Length 117
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 78.27
Mean single sequence MFE -27.32
Consensus MFE -16.66
Energy contribution -16.60
Covariance contribution -0.06
Combinations/Pair 1.14
Mean z-score -2.22
Structure conservation index 0.61
SVM decision value 1.25
SVM RNA-class probability 0.935581
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5290989 117 + 22224390
UAAAACAUCGAUGCUGCGCCAAAGUUUAUUGGCUUUUUAUCGC-GUGCCCAAAAAAAAAAAAGAAUUGUAAGUGAAUUAGC-CAGAAAUUCGCAUGCAAUGGAG-CUCGGUGUAUACGGU
....(((((((.(((.((((((......)))))..........-....................((((((.(((((((...-....))))))).))))))).))-))))))))....... ( -31.30)
>DroSec_CAF1 28261 98 + 1
UAAAACAUCGAUGCUGCGCCAAAGUUUAUUGGCUUUUUUC--C-CUGGCCAAA----------AAUUGUAAGUGAAUUAAC-CAGAAAUUCGCAUACAAUG-AG-CU------AUGCGAU
................(((...(((((.((((((......--.-..)))))).----------.((((((.(((((((...-....))))))).)))))))-))-))------..))).. ( -24.00)
>DroSim_CAF1 19086 98 + 1
UAAAACAUCGAUGCCGGGGCAAAGUUUAUUGGCUUUUUUC--C-CUGGCCAAA----------AAUUGUAAGUGAAUUAAC-CAGAAAUUCGCAUGCAAUG-AG-CU------AUGCGAU
......((((..(((((((.((((((....))))))...)--)-)))))....----------.((((((.(((((((...-....))))))).)))))).-..-..------...)))) ( -29.50)
>DroYak_CAF1 29367 102 + 1
UAAAGCAUCGAUGCCACGCCAAAGUUUAUUGGUUUGUUGUUGCUUUUGCCCA-----------AAUUGUAAGUGAAUUUCCACAGAAAAUCGCAUGCAAUG-UGAAU------AUGCGAU
....((((((((..((.(((((......))))).))..))))........((-----------.((((((.((((.((((....)))).)))).)))))).-))...------))))... ( -24.50)
>consensus
UAAAACAUCGAUGCCGCGCCAAAGUUUAUUGGCUUUUUUC__C_CUGGCCAAA__________AAUUGUAAGUGAAUUAAC_CAGAAAUUCGCAUGCAAUG_AG_CU______AUGCGAU
......((((.......(((((......)))))...............................((((((.(((((((........))))))).))))))................)))) (-16.66 = -16.60 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:49 2006