Locus 588

Sequence ID 3L_DroMel_CAF1
Location 1,695,188 – 1,695,289
Length 101
Max. P 0.792422
window897

overview

Window 7

Location 1,695,188 – 1,695,289
Length 101
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.72
Mean single sequence MFE -28.95
Consensus MFE -17.05
Energy contribution -17.28
Covariance contribution 0.22
Combinations/Pair 1.18
Mean z-score -1.88
Structure conservation index 0.59
SVM decision value 0.59
SVM RNA-class probability 0.792422
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1695188 101 - 23771897
---------GA----GGAUGGGAUGGAGGAGUGGAGCUACGCAGGC---GGGAAGCGUGGCCAAUAAAAUUCCAA-ACUGAUAUGC--UCAAUGGCAACAACGUGCCACAAGUGAGUAGU
---------..----....((..(((((...((..(((((((....---.....)))))))...))...))))).-.))....(((--(((.(((((......)))))....)))))).. ( -31.20)
>DroVir_CAF1 71880 96 - 1
-----GGAGCA------AGCAG--GCAGCA--GGAGAUACGCA-------AAAAGCGUGGCCAAUAAAAUUGCAAAGCUGAUAUGC--UCAAUGGCAACAACGUGCCAGAAGUGAGUAGU
-----...(((------(((..--...)).--((...(((((.-------....))))).)).......))))..........(((--(((.(((((......)))))....)))))).. ( -28.40)
>DroEre_CAF1 60509 105 - 1
-----GCAUGA----GCAUGAGAUGGAGGAGUGGAGCUACGCAGGC---GGGAAGCGUGGCCAAUAAAAUUCCAA-ACUGAUAUGC--UCAAUGGCAACAACGUGCCACAAGUGAGUAGU
-----...(((----(((((((.(((((...((..(((((((....---.....)))))))...))...))))).-.))..)))))--))).(((((......)))))............ ( -31.90)
>DroWil_CAF1 70406 95 - 1
-----------------AGGUGAAGGCGGACCAGAGAUACGCA-------AGAAGCGUGGCCAAUAAAAUUUCAA-ACUGAUAUGCUUUCAAUGGCAACAACGUGCCAGAAGUGAGUAGU
-----------------...(((((((((.(((..(...(...-------.)...).))))).........((..-...))...))))))).(((((......)))))............ ( -21.80)
>DroYak_CAF1 58421 105 - 1
-----GUAUGA----GGAUGAGAUGGAGGAGUGGAGCUACGCAGGC---GGGAAGCGUGGCCAAUAAAAUUCCAA-ACUGAUAUGC--UCAAUGGCAACAACGUGCCACAAGUGAGUAGU
-----......----..((.((.(((((...((..(((((((....---.....)))))))...))...))))).-.)).)).(((--(((.(((((......)))))....)))))).. ( -29.80)
>DroAna_CAF1 55191 117 - 1
GAAGUGUAGGAUGCUGGGGGAGAGCGAAAAAAGGAUUUACGCAGACCGAGAGGAGCGUGGCCAAUAAAAUUCCCA-ACUGAUAUGC--UCAAUGGCAACAACGUGCCACAAGUGAGUAGU
..(((...(((((((.......))))......((...(((((...((....)).))))).))........)))..-)))....(((--(((.(((((......)))))....)))))).. ( -30.60)
>consensus
_____G_A_GA____GGAGGAGAUGGAGGAGUGGAGCUACGCAGGC___GAGAAGCGUGGCCAAUAAAAUUCCAA_ACUGAUAUGC__UCAAUGGCAACAACGUGCCACAAGUGAGUAGU
........................((((.......(((((((............)))))))........))))..........(((..(((.(((((......)))))....)))))).. (-17.05 = -17.28 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:00 2006