Locus 1698

Sequence ID X_DroMel_CAF1
Location 4,732,394 – 4,732,499
Length 105
Max. P 0.593845
window2790

overview

Window 0

Location 4,732,394 – 4,732,499
Length 105
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 91.08
Mean single sequence MFE -32.03
Consensus MFE -26.11
Energy contribution -26.24
Covariance contribution 0.13
Combinations/Pair 1.11
Mean z-score -1.52
Structure conservation index 0.82
SVM decision value 0.12
SVM RNA-class probability 0.593845
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4732394 105 + 22224390
GAAAGGCAAA-CGAAAAGAAUAA--AGGAUUUGUGGGCGUU-UAUGGAGGCGUGGCAGACCACUAAUAGCAGCGCCUUGUUGCCACCGCAAAGCAUGCUUUUCGGUUUA
((((((((..-(.....).....--....(((((((..((.-....(((((((.((............)).)))))))...))..)))))))...))))))))...... ( -29.90)
>DroSec_CAF1 25397 105 + 1
GAAAGGCAAAACGAAACGAA-AA--AGGAUUUGUGGGCGUU-UAUGGAGGCGUGGCAGACCACUAAUAGCAGCGCCUUGUUGCCACCGCAAAGCAUGCUUUUCGGUUUA
....(((((((((..(((((-..--....)))))...))))-)...(((((((.((............)).)))))))..))))((((.((((....)))).))))... ( -33.50)
>DroEre_CAF1 28820 104 + 1
GGGAGAAAAU-CGAAAAGAA-AA--CGGAUUUGUGGGCGUU-UGAGGAGGCGUGGCAGACCACUAAUAGCAGCGCCUUGUUGCCACCGCAAAGCAUGCUUUUCGGUUUA
......((((-(((((((..-..--....(((((((..((.-.((.(((((((.((............)).))))))).))))..))))))).....))))))))))). ( -34.92)
>DroYak_CAF1 26602 107 + 1
GAAAGAAUAA-CGAAAAGAA-AAACGGGAUUUGUGGGCGCUGUGAGGAGGCGUGGCAGACCACUAAUAGCAGCGUCUUGUUGCCACCGCAAAGCAUGCUUUUCGGUUUA
..........-(((((((..-...((...(((((((.....(..(.(((((((.((............)).))))))).)..)..)))))))...)))))))))..... ( -29.80)
>consensus
GAAAGAAAAA_CGAAAAGAA_AA__AGGAUUUGUGGGCGUU_UAAGGAGGCGUGGCAGACCACUAAUAGCAGCGCCUUGUUGCCACCGCAAAGCAUGCUUUUCGGUUUA
...........(((((((...........(((((((..((...((.(((((((.((............)).))))))).))))..))))))).....)))))))..... (-26.11 = -26.24 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:55 2006