Locus 1179

Sequence ID 2L_DroMel_CAF1
Location 3,219,497 – 3,219,603
Length 106
Max. P 0.776534
window1911

overview

Window 1

Location 3,219,497 – 3,219,603
Length 106
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 82.06
Mean single sequence MFE -29.92
Consensus MFE -17.25
Energy contribution -17.49
Covariance contribution 0.24
Combinations/Pair 1.21
Mean z-score -2.21
Structure conservation index 0.58
SVM decision value 0.54
SVM RNA-class probability 0.776534
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3219497 106 - 22407834
AAUGGCGGU-AUG----GGUAGCCUGUUCUUGUAUUUAUGGUUGCAUAAUUGCGGCUAUAAGAGACUGCAGUGCAGAUCUA-AAAUAAAUAUAUAAUUUUCAUAUGCACUAC
....(((((-(((----((...))))).......((((((((((((....))))))))))))..)))))((((((.....(-((((.........)))))....)))))).. ( -27.50)
>DroSec_CAF1 53612 105 - 1
AAUGGCGGG-AUG-----GAAGCCCGUUCUUGUAUUUAUGGUUGCAUAAUUGCGGCUAUAAGCGACUGCAGUGCAGCUCUA-AAAGAUAUUUCUAAUUUUCAUAUGCACUAC
....(((((-(((-----(....))))).((((..(((((((((((....)))))))))))))))))))((((((.....(-(((((....)))..))).....)))))).. ( -30.70)
>DroSim_CAF1 52077 106 - 1
AAUGGCGGG-AUG----GGAAGCCUGUUCUUGUAUUUAUGGUUGCAUAAUUGCGGCUAUAAGCGACUGCAGUGCAGCUCUA-AAAGAUAUUUCUAAUUUUCAUAUGCACUAC
....(((..-(((----..((((((((..((((..(((((((((((....)))))))))))))))..)))).)).......-..(((....)))..))..))).)))..... ( -31.80)
>DroEre_CAF1 50155 105 - 1
AAUGGCG--AAUG----GCAGAGCUGGUCUUGUAUUUAUGGCUGCAUAAUUGCGGCUAUAAGAGACUCUACUGCAGCGCUC-AAAACUAUUUCUAAAAUGUAUAUGCACUAC
..(((((--....----((((((..((((((....(((((((((((....))))))))))))))))))).))))..))).)-)............................. ( -32.00)
>DroYak_CAF1 48863 111 - 1
AAUGGCGGGAAUGGAUGCGAAGGCUGCUCUUGUAUUUAUGGUUGCAUAAUUGCGGCUAUACUCGACUCCGCUGCAACUUUCCAUAAAUAUUUCUAAAAUUUAUAUGUACUA-
......(((((((.(((.(((((.(((....((...((((((((((....))))))))))....))......))).))))))))...))))))).................- ( -27.60)
>consensus
AAUGGCGGG_AUG____GGAAGCCUGUUCUUGUAUUUAUGGUUGCAUAAUUGCGGCUAUAAGCGACUGCAGUGCAGCUCUA_AAAAAUAUUUCUAAUUUUCAUAUGCACUAC
...(((((...............)))))...((..(((((((((((....)))))))))))...))...((((((.............................)))))).. (-17.25 = -17.49 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:35 2006