Locus 5470

Sequence ID X_DroMel_CAF1
Location 14,216,516 – 14,216,636
Length 120
Max. P 0.516793
window8875

overview

Window 5

Location 14,216,516 – 14,216,636
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.39
Mean single sequence MFE -33.10
Consensus MFE -15.52
Energy contribution -16.04
Covariance contribution 0.52
Combinations/Pair 1.23
Mean z-score -1.87
Structure conservation index 0.47
SVM decision value -0.03
SVM RNA-class probability 0.516793
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14216516 120 - 22224390
ACCUUUUUGGUUCUUUGAGGCCCAUAUUUGGCUGUCGAACAAUGUGCGGAUUAAUCAGUGUUAGCCACAGCCAAUUUGGCUUUUAAGAAUUGGAAUGCGUAUGCAUUGUAGGGAAUCUUG
.((((.(..((((((.((((((.....((((((((..((((.((...........)).))))....))))))))...)))))).))))))..)(((((....)))))..))))....... ( -36.50)
>DroSec_CAF1 125859 112 - 1
ACCUUUU--------UGAGGCCCAUAGUUGGCAGUCGAACAACGUGCGGAUUAAUCAGUGUUAGCCACAGCCAAUUUGGCUUUUAAGAAUUGCAAUGCGUACGCAUUGUAGGAAAUCUUG
.((((((--------.((((((...(((((((.((((.....)).))((.(((((....)))))))...))))))).)))))).))))..((((((((....))))))))))........ ( -32.80)
>DroSim_CAF1 103613 112 - 1
ACCUUUU--------UAAGGCCCAUAGUUGGCAGUCGAACAACGUGCGGAUUAAUCAGUGUUAGCCACAGCCAAUUUGGCUUUUAAGAAUUGCAAUGCGUACGCAUUGUAGGGAAUCUUG
.((((((--------.((((((...(((((((.((((.....)).))((.(((((....)))))))...))))))).)))))).)))).(((((((((....)))))))))))....... ( -32.80)
>DroEre_CAF1 114002 113 - 1
ACCUUUUUGGACCUGUGAGGCCCACAGUUGGCAGUCGUACAAUGUGCGGAUUAAUCACUGCUAGCCGCAGCCAAU-UAGUUCUUAA------CAAAGCGUAUGCAUUGUGGGGAAUCUUU
..((..((((..(((((.(.....).((((((((((((((...)))))((....)))))))))))))))))))).-.))((((..(------(((.((....)).))))..))))..... ( -32.20)
>DroYak_CAF1 116157 98 - 1
ACCUUUGU----------CCCUCGUAAU-----GGCGAACAAUGCACGAAUGAAUCAGUAUUAGCCACAGCCAAU-UGGCUGUUAA------CAAUGCGUAUGCAUUGUAGGGAAUCUAG
.......(----------(((((((...-----.))))((((((((.((.....)).(((((....((((((...-.))))))...------.)))))...)))))))).))))...... ( -31.20)
>consensus
ACCUUUUU_______UGAGGCCCAUAGUUGGCAGUCGAACAAUGUGCGGAUUAAUCAGUGUUAGCCACAGCCAAUUUGGCUUUUAAGAAUUGCAAUGCGUAUGCAUUGUAGGGAAUCUUG
.(((..............((((((....)))..)))..((((((((((.(((......((..(((((.(.....).)))))..))........))).)))..))))))))))........ (-15.52 = -16.04 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:44 2006