Locus 1655

Sequence ID 3L_DroMel_CAF1
Location 4,788,718 – 4,788,826
Length 108
Max. P 0.662010
window2564

overview

Window 4

Location 4,788,718 – 4,788,826
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.30
Mean single sequence MFE -34.25
Consensus MFE -19.06
Energy contribution -18.15
Covariance contribution -0.91
Combinations/Pair 1.32
Mean z-score -1.66
Structure conservation index 0.56
SVM decision value 0.27
SVM RNA-class probability 0.662010
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4788718 108 + 23771897
AA------------CUAUAAGAGUGGACUUACUUUAUCCACUUGAGAAUGGUGACAGGUAGAUCCAUCAUGAUAGUGGAAGCCAGGAGCAAUUCAUUGUUCUUGCACUGGGCGCCCUGUA
.(------------((((..(((((((.........)))))))....))))).(((((..(.((((((((....))))..((.((((((((....))))))))))..)))))..))))). ( -32.30)
>DroVir_CAF1 24919 114 + 1
---CCGAGC--UAGUGA-AAAUGAAUACUCACUUGGCCCACUUGAGUAUGGUGAGGGGCAGAUCCAUCAUAAUAGUGGAGGCAAGCAGCAGCUCGUUGUUCUUGCACUGGGCACCCUGUA
---.((((.--.((((.-.......))))..))))((((((((.(.(((.(((((((.....))).)))).))).).)))(((((.(((((....))))))))))..)))))........ ( -35.10)
>DroPse_CAF1 51042 107 + 1
AA------------CCA-AGUCGUAUACUCACUUGACCCACUUCAGGAUGGUCACUGGCAGAUCCAUCAUGAUGGUGGAGGCCAGAAGCAGCUCGUUGUUCUUGCACUGAGCGCCCUGGA
..------------.((-(((.(......))))))......((((((.......(((((...((((((.....)))))).)))))..((.(((((.(((....))).))))))))))))) ( -38.40)
>DroEre_CAF1 17473 108 + 1
GC------------CCAAGAAAGUGGACUUACUUAAUCCACUUGAGUAUGGUGACUGGUAGAUCCAUCAUGAUAGUGGAAGCCAGCAGCAGUUCAUUGUUCUUGCACUGGGCGCCCUGCA
((------------((((((((((((((.(((((((.....)))))))((.((.(((((...(((((.......))))).))))))).))))))))).)))).....)))))........ ( -35.80)
>DroWil_CAF1 17232 118 + 1
AAUUUAAAUUUCAAUCAAUAAA--UUACUUACUUGACCCAUUUCAGAAUGGUCACAGGCAGAUCCAUCAUAAUAGUGGAGGCUAGCAACAGCUCAUUGUUUUUGCACUGGGCACCCUGCA
......................--.......(((((((.(((....)))))))).))((((.(((((.......)))))...........(((((.(((....))).)))))...)))). ( -25.50)
>DroPer_CAF1 54594 107 + 1
AA------------CCA-AGUCGUAUACUCACUUGACCCACUUCAGGAUGGUCACUGGCAGAUCCAUCAUGAUGGUGGAGGCCAGAAGCAGCUCGUUGUUCUUGCACUGAGCGCCCUGGA
..------------.((-(((.(......))))))......((((((.......(((((...((((((.....)))))).)))))..((.(((((.(((....))).))))))))))))) ( -38.40)
>consensus
AA____________CCA_AAAAGUAUACUCACUUGACCCACUUCAGAAUGGUCACUGGCAGAUCCAUCAUGAUAGUGGAGGCCAGCAGCAGCUCAUUGUUCUUGCACUGGGCGCCCUGCA
.................................................(((....(((...(((((.......))))).))).......(((((.(((....))).))))))))..... (-19.06 = -18.15 +  -0.91)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:03 2006