Locus 1343

Sequence ID X_DroMel_CAF1
Location 4,029,921 – 4,030,031
Length 110
Max. P 0.871625
window2143

overview

Window 3

Location 4,029,921 – 4,030,031
Length 110
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 90.40
Mean single sequence MFE -32.24
Consensus MFE -24.62
Energy contribution -25.74
Covariance contribution 1.12
Combinations/Pair 1.10
Mean z-score -2.06
Structure conservation index 0.76
SVM decision value 0.87
SVM RNA-class probability 0.871625
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4029921 110 + 22224390
GUCAGCGGAAACCGGAAGCCGCAACUGCCAGAGUUGCCACACCUAACUGUGUCGCAAAAAUGACUC-GCAGCAAAAUGCGACACAUUCUGGACGGUUAUAAAGGAAAGCUU
....((((....(....)))))((((((((((.((((.((((......)))).))))..(((..((-(((......)))))..)))))))).))))).............. ( -33.90)
>DroSec_CAF1 43691 104 + 1
GUCAGCGGAAACCGGAAGCCGCAACUGCCAGAGUUGCCACACCUAACUGUGUCGCAAAAAUGACUCGGCAGCAAAAUG-GACACAU-CUUGACG----UAAAAGCAAGCU-
(((.((((....(....)))))..(((((.(((((((.((((......)))).)))......))))))))).......-)))....-((((.(.----.....)))))..- ( -30.40)
>DroSim_CAF1 39918 110 + 1
GUCAGCGGAAACCGGAAGCCGCAACUGCCAGAGUUGCCACACCUAACUGUGUCGCAAAAAUGACUC-GCAGCAAAAUGCGACACAUUCUGGACGGUUAUAAAGGAAAGCUU
....((((....(....)))))((((((((((.((((.((((......)))).))))..(((..((-(((......)))))..)))))))).))))).............. ( -33.90)
>DroEre_CAF1 43425 110 + 1
GUCAGCGGAAACCGGAAGCCGCAACUGCCAGAGUUGCCACACCUAAUUGUGUCGCAAAAAAGAAUC-GCAGCAAAAUGCGACACAUUCUGGGUGGUUAUAAAGGAACGUUU
...((((.....(....)((((((((.....))))))..((((((..(((((((((..........-.........)))))))))...))))))........))..)))). ( -33.21)
>DroYak_CAF1 42121 110 + 1
AUCAGCGGAAACCGGAAGCCGCAAAUGCCAGAGUUGCCACACCUAACUGUGUUGCAAAAAUGACUC-GCAGCUAAAUGCGACACAUUCUGGUCGCUUAUAUAGAAACGUUU
.((.((((....(....)))))....((((((.((((.((((......)))).))))..(((..((-(((......)))))..)))))))))..........))....... ( -29.80)
>consensus
GUCAGCGGAAACCGGAAGCCGCAACUGCCAGAGUUGCCACACCUAACUGUGUCGCAAAAAUGACUC_GCAGCAAAAUGCGACACAUUCUGGACGGUUAUAAAGGAAAGCUU
....((((....(....)))))((((((((((((((.......))))(((((((((....((......))......))))))))).))))).))))).............. (-24.62 = -25.74 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:00 2006