Locus 16

Sequence ID 2R_DroMel_CAF1
Location 1,026,992 – 1,027,097
Length 105
Max. P 0.713295
window31 window32

overview

Window 1

Location 1,026,992 – 1,027,097
Length 105
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -18.17
Consensus MFE -17.05
Energy contribution -17.50
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -1.72
Structure conservation index 0.94
SVM decision value 0.38
SVM RNA-class probability 0.713295
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1026992 105 + 20766785
GAAUAACCCGAAAAAAGGAACAUAUUUUGGAUUAUGAUUUCAUCUAAUUAUAUGAAAUUAUACAAAAACUGCAAUCGAUACGGUAACAGAUAUUUAGAUGAAAUA
..((((.((((((...........)))))).)))).(((((((((((.(((.((........))....(((..((((...))))..)))))).))))))))))). ( -18.90)
>DroSec_CAF1 29442 105 + 1
GAAUAACCCGAGAAAAGGAACAUAUUUUGGAUUAUGAUUUCAUCUAAUUAUAUGAAAUUAUACAAAAACUGCAAUCGAUACGGUAACAGAUAUUUAGAUGAAAUG
..((((.((((((...........)))))).)))).(((((((((((.(((.((........))....(((..((((...))))..)))))).))))))))))). ( -19.00)
>DroSim_CAF1 10932 97 + 1
GAAUAACCCGAGAAAAGGAACAUAUUUUGGAUUAUGAUUUCAUCUAAUUAUAUGAAAUUAUA------CUGCAAUCGAUACGGUAACAGAUAUUUAGAUGAAU--
..((((.((((((...........)))))).))))...(((((((((.((((......))))------(((..((((...))))..)))....))))))))).-- ( -16.60)
>consensus
GAAUAACCCGAGAAAAGGAACAUAUUUUGGAUUAUGAUUUCAUCUAAUUAUAUGAAAUUAUACAAAAACUGCAAUCGAUACGGUAACAGAUAUUUAGAUGAAAU_
..((((.((((((...........)))))).)))).(((((((((((.((((......))))......(((..((((...))))..)))....))))))))))). (-17.05 = -17.50 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 1,026,992 – 1,027,097
Length 105
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 93.33
Mean single sequence MFE -17.84
Consensus MFE -14.38
Energy contribution -14.38
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.09
Structure conservation index 0.81
SVM decision value -0.05
SVM RNA-class probability 0.508776
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1026992 105 - 20766785
UAUUUCAUCUAAAUAUCUGUUACCGUAUCGAUUGCAGUUUUUGUAUAAUUUCAUAUAAUUAGAUGAAAUCAUAAUCCAAAAUAUGUUCCUUUUUUCGGGUUAUUC
.(((((((((((....((((...((...))...))))...((((((......))))))))))))))))).(((((((((((..........)))).))))))).. ( -19.00)
>DroSec_CAF1 29442 105 - 1
CAUUUCAUCUAAAUAUCUGUUACCGUAUCGAUUGCAGUUUUUGUAUAAUUUCAUAUAAUUAGAUGAAAUCAUAAUCCAAAAUAUGUUCCUUUUCUCGGGUUAUUC
.(((((((((((....((((...((...))...))))...((((((......))))))))))))))))).(((((((...................))))))).. ( -17.81)
>DroSim_CAF1 10932 97 - 1
--AUUCAUCUAAAUAUCUGUUACCGUAUCGAUUGCAG------UAUAAUUUCAUAUAAUUAGAUGAAAUCAUAAUCCAAAAUAUGUUCCUUUUCUCGGGUUAUUC
--.(((((((((.(((.((.(((.(((.....))).)------))......)).))).)))))))))...(((((((...................))))))).. ( -16.71)
>consensus
_AUUUCAUCUAAAUAUCUGUUACCGUAUCGAUUGCAGUUUUUGUAUAAUUUCAUAUAAUUAGAUGAAAUCAUAAUCCAAAAUAUGUUCCUUUUCUCGGGUUAUUC
...(((((((((....((((...((...))...))))......((((......)))).)))))))))...(((((((...................))))))).. (-14.38 = -14.38 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:23:31 2006