Locus 4768

Sequence ID 3L_DroMel_CAF1
Location 13,382,930 – 13,383,029
Length 99
Max. P 0.801684
window7504

overview

Window 4

Location 13,382,930 – 13,383,029
Length 99
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 78.93
Mean single sequence MFE -34.18
Consensus MFE -20.41
Energy contribution -22.10
Covariance contribution 1.69
Combinations/Pair 1.07
Mean z-score -1.89
Structure conservation index 0.60
SVM decision value 0.62
SVM RNA-class probability 0.801684
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13382930 99 + 23771897
---------------GCAGCAGGGGCAACCGUUAACCUUAAGUUAAUGAUUUGGCCGAUGCCUUUGCUUGCUGGUUGCUGCCUGCGCUUCAAGUGCAGCAUAUGGCAUUUUUAC
---------------..((((((((((..(((((((.....)))))))..((....))))))))))))(((((..((((((((........)).))))))..)))))....... ( -33.50)
>DroPse_CAF1 33225 108 + 1
AAGGGGGGGAUUCUGGCAGC----CUAACCGUUAACCUUUGGUUAAUGAUUUGCUUGCUGCCUUUGGUUGCUGGC--CUGCCUGCGCUUCAAGUGCAACAUAUGGCAUUCUGAG
..(((.(((...(..(((((----(....((((((((...))))))))....((.....))....))))))..))--)).))).....((((((((........))))).))). ( -34.90)
>DroSim_CAF1 54408 99 + 1
---------------GCAGCAGGGGCAACCGUUAACCUUAAGUUAAUGAUUUGGCCGAUGCCUUUGGUUGCUGGUUGCUGCCUGCGCUUCAAGUGCAGCAUAUGGCAUUUUUAC
---------------(((((((.(((((((((((((.....)))))).....(((....)))...)))))))..)))))))((((((.....))))))................ ( -35.90)
>DroEre_CAF1 55127 91 + 1
---------------GCAGCAGGGGCAACCGUUAACCUCAACUUAAUGAUUUGGCCGAUGCCUUUGGU-------UGCUGCCUGCGCUUCAAGUGCAGCAUAUGGCGUU-UUAC
---------------((.(((((((((((((......(((......)))...(((....)))..))))-------)))).)))))(((.(....).))).....))...-.... ( -29.10)
>DroYak_CAF1 57163 99 + 1
---------------GCAGCAGGGGCAACCGUUAACCUUAAGUUAAUGAUUUGCCCAAUGCCUUUGCUUGCUGGCUGCUGCCUGCGCUUCAAGUGCAGCAUAUGGCAUUUUUAU
---------------.......((((((.(((((((.....)))))))..))))))((((((..(((.....(((....)))(((((.....))))))))...))))))..... ( -36.80)
>DroPer_CAF1 33185 108 + 1
AAGGGGGGGAUUCUGGCAGC----CUAACCGUUAACCUUUGGUUAAUGAUUUGCUUGCUGCCUUUGGUUGCUGGC--CUGCCUGCGCUUCAAGUGCAACAUAUGGCAUUCUGAG
..(((.(((...(..(((((----(....((((((((...))))))))....((.....))....))))))..))--)).))).....((((((((........))))).))). ( -34.90)
>consensus
_______________GCAGCAGGGGCAACCGUUAACCUUAAGUUAAUGAUUUGCCCGAUGCCUUUGGUUGCUGGCUGCUGCCUGCGCUUCAAGUGCAGCAUAUGGCAUUUUUAC
...............((((((.((.(((.(((((((.....)))))))..))).))...(((..........)))))))))((((((.....))))))................ (-20.41 = -22.10 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:41 2006