Locus 4890

Sequence ID 3L_DroMel_CAF1
Location 13,629,305 – 13,629,422
Length 117
Max. P 0.791877
window7719

overview

Window 9

Location 13,629,305 – 13,629,422
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.73
Mean single sequence MFE -28.76
Consensus MFE -18.32
Energy contribution -18.88
Covariance contribution 0.56
Combinations/Pair 1.07
Mean z-score -2.21
Structure conservation index 0.64
SVM decision value 0.59
SVM RNA-class probability 0.791877
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13629305 117 - 23771897
--ACACACGCACACACAUGCGUGCGGAAGGA-CCUCUUCGAGGCGAAAUUUUAUGACGGCAACAUUUACACGCAUAAAAUAUGCAUGAUAAAACUUUGUUGUUGCAAUAAAUCAGCCACC
--.(.((((((......)))))).)((((..-...))))..(((.....(((((..((((((((((((((.(((((...))))).)).))))....))))))))..)))))...)))... ( -32.90)
>DroPse_CAF1 20276 99 - 1
--GCAUACGCACACUCAUGUGUG-----------UCU--------UGCUUUUAUGACGGCAACAUUUACACGCAUAAAAUAUGCAUGAUAAAACUUUGUUGUUGCAAUAAAUCAGCCCCC
--(((...((((((....)))))-----------)..--------))).(((((..((((((((((((((.(((((...))))).)).))))....))))))))..)))))......... ( -26.20)
>DroEre_CAF1 39079 119 - 1
ACAUACACCCACACACAUGCGUGCGGAAGGA-CCUCUUGAAGGAGAAAUUUUAUGACGGCAACAUUUACACGCAUAAAAUAUGCAUGAUAAAACUUUGUUGUUGCAAUAAAUCAGCCACC
........((.(((......))).))..((.-.((((....))))....(((((..((((((((((((((.(((((...))))).)).))))....))))))))..)))))....))... ( -25.40)
>DroYak_CAF1 43615 119 - 1
ACACACACAAACACACAUGCGUGCGGAAGGA-CCUCUUGAAGGAGAAAUUUUAUGACGGCUACAUUUACACGCAUAAAAUAUGCAUGAUAAAACUUUGUUGUUGCAAUAAAUCAGCCACC
...............(((((((.(....).)-)((((....))))..((((((((.((............))))))))))..)))))..........((.((((........)))).)). ( -22.40)
>DroAna_CAF1 72886 116 - 1
--GCCCACGCACACAUGUGCGUGCGGGAGGAACGUCUCCG--GAGCCGUUUUAUGACGGCAACAUUUACACGCAUAAAAUAUGCAUGAUAAAACUUUGUUGUUGCAAUAAAUCAGCCGCG
--....((((((....))))))((((((((....))))).--..((.(.(((((..((((((((((((((.(((((...))))).)).))))....))))))))..))))).).))))). ( -36.90)
>consensus
__ACACACGCACACACAUGCGUGCGGAAGGA_CCUCUUCAAGGAGAAAUUUUAUGACGGCAACAUUUACACGCAUAAAAUAUGCAUGAUAAAACUUUGUUGUUGCAAUAAAUCAGCCACC
.....((((((......))))))..........................(((((..((((((((((((((.(((((...))))).)).))))....))))))))..)))))......... (-18.32 = -18.88 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:14 2006