Locus 6193

Sequence ID 2L_DroMel_CAF1
Location 17,267,704 – 17,267,796
Length 92
Max. P 0.706140
window9895

overview

Window 5

Location 17,267,704 – 17,267,796
Length 92
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 84.13
Mean single sequence MFE -23.88
Consensus MFE -19.92
Energy contribution -21.00
Covariance contribution 1.08
Combinations/Pair 1.08
Mean z-score -1.74
Structure conservation index 0.83
SVM decision value 0.36
SVM RNA-class probability 0.706140
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17267704 92 - 22407834
---------GCCAUUAGCGGGGCCUAAUUAGGCGCGGUC-----UGGCAGCACCCGCAAA-AAA------------UUAUAGAAACAUAUAGCAAACCGCACGAAAAUUGUGCAAUUCA
---------((.....(((((((((....))))((....-----..))....)))))...-...------------.((((......)))))).....((((((...))))))...... ( -26.10)
>DroPse_CAF1 186150 113 - 1
CAGCCCCUCGCCAUUAACGGGGCCUAAUUAGGCGCGGUC-----UGGCAGCACCCGCGAA-GAAAAAAAGAAAACCAUAUAGAAAUAUUAAGCAAAUCGCAUGAAAAUUUUGCAAAUCA
.........((((...((.(.((((....)))).).)).-----)))).......(((((-(................(((....)))...((.....)).......))))))...... ( -22.20)
>DroSim_CAF1 115418 92 - 1
---------GCCAUUAGCGGGGCCUAAUUAGGCGCGGUC-----UGGCAGCACCCGCAAA-AAA------------UUAUAGAAACAUAUAGCAAACCGCACGAAAAUUGUGCAAUUCA
---------((.....(((((((((....))))((....-----..))....)))))...-...------------.((((......)))))).....((((((...))))))...... ( -26.10)
>DroEre_CAF1 109811 92 - 1
---------GCCAUUAGCGG-GCCUAAUUAGGCGCGGUC-----UGGCAGAACCCGCAAAAAAA------------UUAUAGAAACAUAUAGCAAGCCGCACGAAAAUUGUGCAAUUCA
---------((((..(.((.-((((....)))).)).).-----)))).(((............------------(((((......)))))......((((((...))))))..))). ( -23.00)
>DroYak_CAF1 112658 92 - 1
---------GCCAUUAGCGGGGCCUAAUUAGGCGCGGUC-----UGGCAGCACCCGCAAA-AAA------------UUAUAGAAACAUAUAGCAAACCGCACGAAAAUUGUGCAAUUCA
---------((.....(((((((((....))))((....-----..))....)))))...-...------------.((((......)))))).....((((((...))))))...... ( -26.10)
>DroAna_CAF1 179229 98 - 1
---------GCCAUUAGCGCGGCCUAAUUAGACGCGGUCUGGUCUGGUAGCACCCGCAAAAAAA------------UUAUAGAAAAAUAUAGCAAAUAGCAUGAAAAUUGUGCAAAUCA
---------.......((((((.(((.((((((........)))))))))...)))).......------------.((((......)))))).....(((..(...)..)))...... ( -19.80)
>consensus
_________GCCAUUAGCGGGGCCUAAUUAGGCGCGGUC_____UGGCAGCACCCGCAAA_AAA____________UUAUAGAAACAUAUAGCAAACCGCACGAAAAUUGUGCAAUUCA
.........((.....(((((((((....))))((.(((......))).)).)))))....................((((......)))))).....((((((...))))))...... (-19.92 = -21.00 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:50 2006