Locus 3501

Sequence ID 3R_DroMel_CAF1
Location 9,453,399 – 9,453,498
Length 99
Max. P 0.961182
window5624

overview

Window 4

Location 9,453,399 – 9,453,498
Length 99
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 81.97
Mean single sequence MFE -25.99
Consensus MFE -16.54
Energy contribution -16.86
Covariance contribution 0.32
Combinations/Pair 1.06
Mean z-score -2.60
Structure conservation index 0.64
SVM decision value 1.52
SVM RNA-class probability 0.961182
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9453399 99 - 27905053
AAAGUAAUCUGGAAAUGCAUCUGGCAAAAUGCAUUCGAUUUCAUUUCGAUGCCAGUCCAGC---------------------UACCAAAUACUAAUCAUGGAAUCGCCAGAAUAUUUCUA
.........((((((((..((((((.....((((.(((.......)))))))...((((..---------------------................))))...)))))).)))))))) ( -24.37)
>DroSec_CAF1 83008 99 - 1
AAAGUAAUCUGGAAAUGCAUUUGGCAAAAUGCAUUCGAUUUCAUUUCGAUGCCAGUCCAGC---------------------UAACAAAUACUAAUCAUGGAAUCGCCAGAAUAUUUCUA
.(((((.(((((.(((((((((....)))))))))(((((((((...(((...(((.....---------------------........))).))))))))))))))))).)))))... ( -24.82)
>DroSim_CAF1 72332 99 - 1
AAAGUAAUCUGGAAAUGCAUCUGGCAAAAUGCAUUCGAUUUCAUUUCGAUGCCAGUCCAGC---------------------UAACAAAUACUAAUCAUGGAAUCGCCAGAAUAUUUCUA
.........((((((((..((((((.....((((.(((.......)))))))...((((..---------------------................))))...)))))).)))))))) ( -24.37)
>DroEre_CAF1 90691 120 - 1
AAAGUAAUCUGAAAAUGCAUCUGGCAAAAUGCAUUCGAUUUCAUUCCGAUGAAAGUUCAGCUCUGCCCAGCAUUCUGAACGCUAGCAAAUACUAAUCGGGGAAUCACUAGAAUAUUUCUA
.(((((.((((..(((((((........))))))).((((((...(((((....((((((...(((...)))..))))))..(((......))))))))))))))..)))).)))))... ( -27.90)
>DroYak_CAF1 85265 120 - 1
AAAGUAAUCUGGAAAUGCAGCUGGAAAAAUGCAUUCGAUUUCAUUUCGAUGAAAGUUCAGCUCUGCCCAGCAUUCUGAACGCUACCAAAUACUAAUCGGGGAAUCUCUAGAAUAUUUUUG
((((((.((((((((((((..(....)..)))))).((((((...(((((....((((((...(((...)))..))))))..............))))))))))))))))).)))))).. ( -28.47)
>consensus
AAAGUAAUCUGGAAAUGCAUCUGGCAAAAUGCAUUCGAUUUCAUUUCGAUGCCAGUCCAGC_____________________UAACAAAUACUAAUCAUGGAAUCGCCAGAAUAUUUCUA
.(((((.(((((.(((((((........))))))).((((((((...(((...(((..................................))).))))))))))).))))).)))))... (-16.54 = -16.86 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:40 2006