Locus 7798

Sequence ID 3R_DroMel_CAF1
Location 20,896,172 – 20,896,292
Length 120
Max. P 0.878026
window12577

overview

Window 7

Location 20,896,172 – 20,896,292
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 90.00
Mean single sequence MFE -35.75
Consensus MFE -29.80
Energy contribution -30.93
Covariance contribution 1.13
Combinations/Pair 1.11
Mean z-score -1.93
Structure conservation index 0.83
SVM decision value 0.90
SVM RNA-class probability 0.878026
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20896172 120 - 27905053
CCGAUUUAUUGGUCUUAUCCUCGUCGAAGAACUUUUCUGGCAGUUUCUCGACAGUAGUUUCAUUCUCAGGCUUGCUGCUCGCAUUUCCCUGGGCAGUUUUCUCUUGAAUGAGGGGAGGAU
((((....))))....(((((((((((..((((........))))..))))).....((((((((..(((...((((((((........))))))))..)))...)))))))).)))))) ( -39.20)
>DroSec_CAF1 3790 120 - 1
CAGAUUUAUUAGUCUUAUCCUCGUCGAAGAACUUUUCUGGCAGCUUCUCGGCACUAGUUUCAUUAACAGGCUUGAUGCUCGCAUUUCCCUGAGCAGUUUUCUCUUGAACGAUGGAAGGAU
...........(((((.(((((((..((((.....((.(((.(((....))).((.(((.....)))))))).))((((((........))))))......))))..)))).)))))))) ( -27.10)
>DroSim_CAF1 3777 120 - 1
CAGAUUUAUUAGUCUUAUCCUCGUCGAAGAACUUUUCGGGCAGUUUCUCGGCAGUAGUUUCAUUCACAGGCUUGCUGCUCGCAUUUUCCUGAGCAGUUUUCUCUUGAACGAUGAGAGGAU
.(((((....))))).(((((((((((..((((........))))..))))).......(((((..((((...((((((((........)))))))).....))))...))))))))))) ( -37.10)
>DroYak_CAF1 3432 120 - 1
CGGAUUUGUUGGUCUUAUCCUCGUCGAAGAACUUUUCUGGCAGUUUUUCGGCAGUAGUUUCAUUCACGGGCUUGCUGCUCGCAUUUGGCUGGGAGGUUUUCUCUUGAAUGAUGUGAGGAU
.(((((....))))).(((((((((((((((((........))))))))))).......(((((((.(((...(((.(((((.....)).))).)))...))).)))))))...)))))) ( -39.60)
>consensus
CAGAUUUAUUAGUCUUAUCCUCGUCGAAGAACUUUUCUGGCAGUUUCUCGGCAGUAGUUUCAUUCACAGGCUUGCUGCUCGCAUUUCCCUGAGCAGUUUUCUCUUGAACGAUGGGAGGAU
..((((....))))..(((((((((((..((((........))))..))))).......(((((((..((...((((((((........))))))))...))..)))))))...)))))) (-29.80 = -30.93 +   1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:58 2006