Locus 43

Sequence ID 2R_DroMel_CAF1
Location 1,272,638 – 1,272,730
Length 92
Max. P 0.913419
window79

overview

Window 9

Location 1,272,638 – 1,272,730
Length 92
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 70.61
Mean single sequence MFE -21.58
Consensus MFE -16.53
Energy contribution -16.37
Covariance contribution -0.16
Combinations/Pair 1.32
Mean z-score -1.00
Structure conservation index 0.77
SVM decision value 1.09
SVM RNA-class probability 0.913419
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1272638 92 + 20766785
AACAAUGUAUUCUUCGAUGAGCCUGCCUGAAUGAGUUUCAAAGCAGGCACAGAUACGGAAUAUACAAUAGUUUCUAUGACUGUGAUAUUUGA----------------
..((((((((..((((.((.((((((.((((.....))))..)))))).))....))))..)))))((((((.....)))))).....))).---------------- ( -25.60)
>DroGri_CAF1 4220 73 + 1
------GUGUUCUCCGAUGAGCCUGCAUAGUUGAGUUCCAAUGCAGGAACAGAUACGGAACAUAUAAAUUCUCCACACA-----------------------------
------(((((((....((..(((((((.(........).)))))))..)).....)))))))................----------------------------- ( -18.50)
>DroSec_CAF1 1233 107 + 1
AACAAUGUGUUCUUCGAUGAGCCUGCCUGAAUGAGCUUCAAAGCAGGCACAGAUACGGAAUAUACAAUAGUUUCCAUCACUGUGAUACUUGACAC-ACUAGACUCCGC
.....((((((.........((((((.((((.....))))..))))))((((....((((...........))))....)))).......)))))-)........... ( -24.30)
>DroSim_CAF1 1231 107 + 1
AACAAUGUGUUCUUCGAUGAGCCUGCCUGAAUGAGUUUCAAAGCAGGCACAGAUACGGAAUAUACAAUAGUUUCCAUCACUGUGAUACUUGACAC-ACUUGACUCCGC
..(((((((((.........((((((.((((.....))))..))))))((((....((((...........))))....)))).......)))))-).)))....... ( -26.70)
>DroEre_CAF1 1245 108 + 1
UUCAAAAUGUUCUUCGAUGAGCCUGCCUGAUUGAGUUUCAAAGCAUGCACAGAUACGGGACAUACAAGCCAUGAAAUGAUUGUUAAACUUGACACGACUAGAUACAAC
.((((.(((((((....((.((.(((.(((.......)))..))).)).)).....)))))))((((..(((...))).)))).....))))................ ( -15.70)
>DroYak_CAF1 1235 108 + 1
UUUAAAAUGUUCUUCGAUGAGCCUGCCUGAUUGAGUGUCAAAGCAUGCACAGAUACGGAAUAUACAAGCCUUGAAAUCACUGUUAAAUUUGACACAACUAGAUACAAC
.......(((((((((((.((.....)).)))))((((((((......((((....((..........)).((....))))))....))))))))....))).))).. ( -18.70)
>consensus
AACAAUGUGUUCUUCGAUGAGCCUGCCUGAAUGAGUUUCAAAGCAGGCACAGAUACGGAAUAUACAAUAGUUUCAAUCACUGUGAUACUUGACAC_ACUAGA__C__C
......(((((((....((.((((((.((((.....))))..)))))).)).....)))))))............................................. (-16.53 = -16.37 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:24:30 2006