Locus 6500

Sequence ID 3L_DroMel_CAF1
Location 17,262,366 – 17,262,484
Length 118
Max. P 0.554388
window10505

overview

Window 5

Location 17,262,366 – 17,262,484
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.12
Mean single sequence MFE -32.25
Consensus MFE -25.91
Energy contribution -26.19
Covariance contribution 0.28
Combinations/Pair 1.09
Mean z-score -1.38
Structure conservation index 0.80
SVM decision value 0.04
SVM RNA-class probability 0.554388
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17262366 118 + 23771897
UCUGCAAGGGAUGCCCCCUUGUGCUC--UCCCAAACUUUAUCUGCAAUCAGUGGCCUGCAGAAUUUCACACAUGGCCACAUGGUUCGAUACGUUUGAUUAAUGCCCUCGCACUGAGUGCA
...(((((((.....)))))))((.(--((.(((((..((((.(.(((((((((((.................)))))).)))))))))).))))).....(((....)))..))).)). ( -37.63)
>DroSec_CAF1 145944 118 + 1
UCUGCAAAGGAUGCCCCCUUGCGCUG--CCCCAAACUUUAUCUGCAAUCAGUGGCCUGCAGAAUUUCACACAUGGCCACAUGGUUCGAUACGUUUGAUUAAUGCCCUCGCACUGAGUGCA
......((((......))))(((((.--...(((((..((((.(.(((((((((((.................)))))).)))))))))).))))).....(((....)))...))))). ( -31.03)
>DroSim_CAF1 140955 118 + 1
UCUGCAAAGGAUGCCCCCUUGUGCUG--CCCCAAACUUUAUCUGCAAUCAGUGGCCUGCAGAAUUUCACACAUGGCCACAUGGUUCGAUACGUUUGAUUAAUGCCCUCGCACUGAGUGCA
...(((((((......)))).)))..--...(((((..((((.(.(((((((((((.................)))))).)))))))))).))))).....(((.(((.....))).))) ( -30.93)
>DroEre_CAF1 149042 115 + 1
UCUGCGGAGGAUAGCCUCC-----UGCCCCCCAAACUUUAUCUGCAAUCAGUGGCCUGCACAAUUUCACACAUGGCCACAUGGUUCGAUACGUUUGAUUAAUGCCCUCGCACUGAGUGCA
...(((((((....)))))-----.))....(((((..((((.(.(((((((((((.................)))))).)))))))))).))))).....(((.(((.....))).))) ( -34.33)
>DroYak_CAF1 153346 120 + 1
UCUGCGCAGGACACCCCCUAGAAGUACCCCCAAAACUUUAUCUGCAAUCAGUGGCCUGCACAAUUUCACACAUGGCCACAUGGUUCGAUACGUUUGAUUAAUGCCCUCGCACUGAGUGCA
...(((((((......)))...........((((....((((.(.(((((((((((.................)))))).))))))))))..)))).(((.(((....))).))))))). ( -27.33)
>consensus
UCUGCAAAGGAUGCCCCCUUGUGCUG__CCCCAAACUUUAUCUGCAAUCAGUGGCCUGCAGAAUUUCACACAUGGCCACAUGGUUCGAUACGUUUGAUUAAUGCCCUCGCACUGAGUGCA
...(((((((......))))...........(((((..((((.(.(((((((((((.................)))))).)))))))))).))))).....)))....((((...)))). (-25.91 = -26.19 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:34 2006