Locus 2301

Sequence ID 3R_DroMel_CAF1
Location 6,542,280 – 6,542,400
Length 120
Max. P 0.725876
window3720

overview

Window 0

Location 6,542,280 – 6,542,400
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 93.14
Mean single sequence MFE -26.85
Consensus MFE -23.38
Energy contribution -22.88
Covariance contribution -0.50
Combinations/Pair 1.14
Mean z-score -1.63
Structure conservation index 0.87
SVM decision value 0.41
SVM RNA-class probability 0.725876
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6542280 120 - 27905053
GCAUGUUUUGGACUCACAGAAGCCCGCACUGUUUUACAUCCACAACCGGCAAAAAAAAACAUUGCCCUUGGACUGCAUUUUAAUGUCCAACUUGUGGUUCAGUAAACAACUAAAACUCUC
....(((((((....((((.........))))(((((..((((((..(((((.........))))).((((((...........)))))).))))))....)))))...))))))).... ( -27.60)
>DroSim_CAF1 18594 118 - 1
GCAUGUUUUGGACUCACAGAAGCCCGCACUGUUUUACAUCCACAACCGGCAAAA--AAACAUUGCCCUUGGACUGCAUUUUAAUGUCCAACUUGUGGUUCAGUAAACAACUAAAACUCUC
....(((((((....((((.........))))(((((..((((((..(((((..--.....))))).((((((...........)))))).))))))....)))))...))))))).... ( -28.10)
>DroEre_CAF1 21360 118 - 1
GCGUUUUUUGGACUCACAGAAGCUCGCACAGUUGUACAUCCACAGCCGGCGGAA--AAACAAUGCCCUUGCACUGCAUUUUAAUGUCCAACUUGUGGUUCAGUACACAACCAAAACUCUU
..(((((((((((....(((.((((((.(.(((((......))))).)))))..--......(((....)))..)).)))....)))))).(((((........)))))..))))).... ( -25.60)
>DroYak_CAF1 19580 118 - 1
GCAUGUUUUGGACUCACAGAAGCCCGCACAGUUUUACAUCCACAACCGGCGGAA--AAACAAUGCCCUUGGACUGCAUUUUAAUGUCCAACUUGUGGUUCAGUAAACAACUAAAACUCUC
...((((((((((.(((((......(((..(((((...(((.(.....).))))--))))..)))..((((((...........)))))).))))))))))..)))))............ ( -26.10)
>consensus
GCAUGUUUUGGACUCACAGAAGCCCGCACAGUUUUACAUCCACAACCGGCAAAA__AAACAAUGCCCUUGGACUGCAUUUUAAUGUCCAACUUGUGGUUCAGUAAACAACUAAAACUCUC
....(((((((..........(....).....(((((..((((((..((((...........)))).((((((...........)))))).))))))....)))))...))))))).... (-23.38 = -22.88 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:00 2006