Locus 5536

Sequence ID 2R_DroMel_CAF1
Location 17,685,481 – 17,685,601
Length 120
Max. P 0.528934
window8884

overview

Window 4

Location 17,685,481 – 17,685,601
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.39
Mean single sequence MFE -33.33
Consensus MFE -18.09
Energy contribution -17.32
Covariance contribution -0.77
Combinations/Pair 1.38
Mean z-score -1.80
Structure conservation index 0.54
SVM decision value -0.01
SVM RNA-class probability 0.528934
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17685481 120 - 20766785
UACUACGUUAGUCCGCUGCUUAUGCAGGAACUGCAUCUGCAGGGAUUUCCAGUGCCUACCACCUACGCCUCCUGCGGACUAACACAUUUUCAAUCCAAUGCAGGACGUACUUUAGCUCAU
...((((((((((((((((..((((((...))))))..)))((((......(((.....))).......))))))))))))))..........(((......))).)))........... ( -35.72)
>DroPse_CAF1 2626 120 - 1
CACAGCAUUACACCAUUGCUGAUGCAGGAACUGUUUUUGCGUGGCUUUCCAGUGCCUCGGAGCUACGCUGCCUGUGGCCUUACCCAUUUCCAAGCCUAUGCCGGACGCACCCUGGUACAC
..(((((.........)))))..(((((..........(((((((..(((........))))))))))..)))))(((...............)))..((((((.......))))))... ( -33.46)
>DroSec_CAF1 2531 120 - 1
CACUACGUCAGUCCGCUGCUCAUGCAGGAACUACAUCUUCAGGGCUUUCCAGUGCCUACCCCAUACGCCUCCUGCGGACUGACACAUUUUCAAUCAUACGCUGGACGCACAUUAGCUCAU
......((((((((((.((....))((((............((((........))))............))))))))))))))................(((((.......))))).... ( -33.65)
>DroEre_CAF1 3372 120 - 1
CACUACGUCAGUCCACUGCUCAUGCAGGAACUGCAUCUGCAAGGCUUUCCAGUGCCCACCACCUACGCCUCCUGCGGACUUACACAUUUUCAAGCCUACGCAGGACGCACUUUGACCAAU
......(((((.....(((..((((((...))))))..))).(((........)))..........((.(((((((......................))))))).))...))))).... ( -32.65)
>DroYak_CAF1 2516 120 - 1
CACUACGUCAGUCCGCUGCUCAUGCAGGAACUGUAUCUGCAAGGCUUUCCAGUGCCUACCACCUACGCCUCCUGCGGUCUCACACAUUUCCAAUCCUACGCAGGACGUACUUUGACUAAC
......(((((.....(((..((((((...))))))..)))((((........))))......((((..(((((((......................)))))))))))..))))).... ( -31.05)
>DroPer_CAF1 470 120 - 1
CACAGCAUUACACCAUUGCUGAUGCAGGAACUGUUUUUGCGUGGCUUUCCAGUGCCUCGGAGCUACGCUGCCUGUGGCCUUACCCAUUUCCAAGCCUAUGCCGGACGCACCCUGGUACAC
..(((((.........)))))..(((((..........(((((((..(((........))))))))))..)))))(((...............)))..((((((.......))))))... ( -33.46)
>consensus
CACUACGUCAGUCCACUGCUCAUGCAGGAACUGCAUCUGCAAGGCUUUCCAGUGCCUACCACCUACGCCUCCUGCGGACUUACACAUUUCCAAGCCUACGCAGGACGCACUUUGGCUCAC
......((((......(((..((((((...))))))..))).(((........)))..........((.(((.(((......................))).))).))....)))).... (-18.09 = -17.32 +  -0.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:12 2006