Locus 5956

Sequence ID 2L_DroMel_CAF1
Location 16,778,251 – 16,778,371
Length 120
Max. P 0.755330
window9462

overview

Window 2

Location 16,778,251 – 16,778,371
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 90.56
Mean single sequence MFE -39.08
Consensus MFE -34.83
Energy contribution -35.25
Covariance contribution 0.42
Combinations/Pair 1.18
Mean z-score -1.47
Structure conservation index 0.89
SVM decision value 0.49
SVM RNA-class probability 0.755330
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16778251 120 + 22407834
AAUGCCUCUAAUGACUUACAGCGUCUGGAGGAGAAGGCCAAGAAGGCUGAGGAACUGCAUGCCGCUGAAGUGAAGGUGCGCAAGGAGCUCGAGGCCCUCAACGCCAAGCUUUUGGCUGAG
...(((((.....((((.(((((.(((.((.....((((.....))))......)).)).).)))))))))((.(.(.(....).).)))))))).((((..(((((....))))))))) ( -41.00)
>DroVir_CAF1 8311 120 + 1
AAUGCUUCCAAUGAUCUACAGCGUCUGGAGGAGAAGGCCAAGAAGGCUGAGGAACUGCAUGCCGCUGAAGUGAAAGUGCGCAAGGAGUUGGAGGUCUUGAACGCCAAACUGUUGGCCGAG
...(((((((((..(((.(((((.(((.((.....((((.....))))......)).)).).)))))..(((......))).))).)))))))))((((...(((((....))))))))) ( -37.70)
>DroGri_CAF1 8554 120 + 1
ACUGCUUCCAAUGAUUUACAGCGUCUGGAGGAGAAGGCCAAGAAGGCUGAGGAACUGCAUGCCGCUGAAGUGAAAGUGCGCAAGGAAUUGGAGGUGCUCAACGCCAAAUUGCUGGCUGAG
...(((((((((..(((.(((((.(((.((.....((((.....))))......)).)).).)))))..(((......))))))..))))))))).((((..((((......)))))))) ( -39.20)
>DroSec_CAF1 7858 120 + 1
AAUGCCUCUAAUGACUUACAGCGUCUGGAGGAGAAGGCCAAGAAGGCUGAGGAACUGCACGCCGCUGAAGUGAAAGUGCGCAAGGAGCUGGAGGCCCUCAACGCCAAGCUGUUGGCUGAG
...((((((..(.((((.(((((.(((.((.....((((.....))))......)).)).).))))))))).).(((.(....)..))))))))).((((..(((((....))))))))) ( -41.90)
>DroWil_CAF1 8033 120 + 1
AACAAUUCAAAUGACUUACAGCGUCUGGAGGAGAAGGCAAAGAAGGCUGAGGAAUUGCAUGCCGCUGAAGUGAAAGUACGCAAGGAGUUGGAGGCUCUCAAUGCCAAAUUGUUGGCUGAG
..((((((...(.((((.((((((((........))))......(((((........)).))))))))))).).....(....)))))))......((((..(((((....))))))))) ( -33.90)
>DroMoj_CAF1 8462 120 + 1
AAUGCUUCUAAUGACUUACAGCGUCUGGAGGAGAAGGCCAAGAAGGCUGAGGAACUGCAUGCCGCUGAAGUGAAAGUGCGCAAGGAAUUGGAGGCACUGAACGCCAAACUGUUGGCCGAG
..((((((((((..(((.(((((.(((.((.....((((.....))))......)).)).).)))))..(((......))))))..))))))))))......(((((....))))).... ( -40.80)
>consensus
AAUGCUUCUAAUGACUUACAGCGUCUGGAGGAGAAGGCCAAGAAGGCUGAGGAACUGCAUGCCGCUGAAGUGAAAGUGCGCAAGGAGUUGGAGGCCCUCAACGCCAAACUGUUGGCUGAG
...(((((((((..(((.(((((.(((.((.....((((.....))))......)).)).).)))))..(((......))))))..))))))))).......(((((....))))).... (-34.83 = -35.25 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:25 2006