Locus 5434

Sequence ID X_DroMel_CAF1
Location 14,165,489 – 14,165,607
Length 118
Max. P 0.658234
window8812

overview

Window 2

Location 14,165,489 – 14,165,607
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 81.69
Mean single sequence MFE -23.46
Consensus MFE -16.33
Energy contribution -16.73
Covariance contribution 0.40
Combinations/Pair 1.23
Mean z-score -1.71
Structure conservation index 0.70
SVM decision value 0.26
SVM RNA-class probability 0.658234
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14165489 118 + 22224390
AGAUGUAUAGAUACAAGCACGGAUAAAGAUGCACGGCAAAAAAUUGUAGUUGUGUUGGAACAA--CUUAUACAGUAUAAUGAAAAUUAUUCAUUACUAACAAGACUUUGAUUAAUAUGUU
.(((((((.(((.(((((.((..((....))..))))..........((((.((((((....(--((.....))).(((((((.....))))))))))))).)))))))))).))))))) ( -19.20)
>DroSec_CAF1 76047 113 + 1
AGAUGUAUAGAUACAAGCACGGAUAAAGAUGCACAGCGAGAAAUUGGAGUUGUGUGGAGAAAA--UAUGUA-----UAGUGAAAAUUAUUCAUUAAUAACAUGACUUUGAUUAUUAUGUU
...((((....)))).((((.......).)))(((...((.(((..((((..(((........--.(((.(-----((((....))))).))).....)))..))))..))).)).))). ( -20.84)
>DroSim_CAF1 53903 118 + 1
AGAUGUAUAGAUACAAGCACGGAUAAAGAUGCACAGAGAGAAAUUGGAGUUGUGUGGGGAAAA--UAUGUACAGUAUGGUGAAAAUUAUUCAUCAUUAACAUGACUUUGAUUAUUAUGUU
...((((....)))).((((.......).)))(((...((.(((..((((..(((........--..........((((((((.....))))))))..)))..))))..))).)).))). ( -21.85)
>DroEre_CAF1 65736 115 + 1
AGAUGUAUAGAUACAAGCACGGAUACAGAUGCACUGCGAGAAAUUGCAGUUGUGUGA---AUA--CAUCUACAAUGUAAUGCAAAUUAUGCAUUAAUCACAUUAUCUUGAUUACAUUAUU
((((((((..(((((.((((.......).)))(((((((....))))))))))))..---)))--)))))..(((((((((((.....))))))(((((........))))))))))... ( -33.80)
>DroYak_CAF1 66518 117 + 1
AGAUGUAUAGAUACAAGCACGGAUAAAGAUGCACAGAAAGAAAUUGGAGUUGUGUGA---AUAUCUAUCUACAAUGUAAUGGAAAUUAUCCAUACAUCACAUUACUUUGAUUAUAAUGUU
...((((....)))).((((.......).))).........(((..((((.((((((---..............((((.((((.....)))))))))))))).))))..)))........ ( -21.63)
>consensus
AGAUGUAUAGAUACAAGCACGGAUAAAGAUGCACAGCGAGAAAUUGGAGUUGUGUGG__AAAA__UAUCUACAAUAUAAUGAAAAUUAUUCAUUAAUAACAUGACUUUGAUUAUUAUGUU
...((((....)))).((((.......).))).........((((((((((((((((...................(((((((.....))))))).))))))))))))))))........ (-16.33 = -16.73 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:47 2006