Locus 1465

Sequence ID 3L_DroMel_CAF1
Location 4,248,446 – 4,248,559
Length 113
Max. P 0.997368
window2278 window2279

overview

Window 8

Location 4,248,446 – 4,248,559
Length 113
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 82.10
Mean single sequence MFE -19.73
Consensus MFE -18.22
Energy contribution -18.67
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -3.09
Structure conservation index 0.92
SVM decision value 2.85
SVM RNA-class probability 0.997368
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4248446 113 + 23771897
AAAUAUGGAAGAGAAAUGUCAUUUCAUCAUAAGAUCAGUUGAUCCUAGAUGAAGAAACAUGUGCCUAUAAUAAAACAUGUAAACAAGAAAACGUAUAUAAACAUACAUACAUU
..(((((..............(((((((.((.((((....)))).)))))))))..((((((............))))))...........)))))................. ( -18.50)
>DroSec_CAF1 10173 98 + 1
UAAUAUGGAAGAGAAAUGACAUAUCAUCAUAGGAUCAGUUGAUCCUAGAAGAAGAAACAUGUGCCUAUUAUAAAACAUGUAAACAAGAAAACAUAUAU---------------
..(((((................((.((.(((((((....))))))))).))....((((((............))))))...........)))))..--------------- ( -19.60)
>DroSim_CAF1 10447 91 + 1
UAAUAUGGAAGAGAAAUGACAUUUCAUCAUAGGAUCAGUUGAUCCUAGAAGAAGAAACAUGUGCCUAUUAUAAAACAUGUAA-------AACAUAUAU---------------
..(((((..............((((.((.(((((((....))))))))).))))..((((((............))))))..-------..)))))..--------------- ( -21.10)
>consensus
UAAUAUGGAAGAGAAAUGACAUUUCAUCAUAGGAUCAGUUGAUCCUAGAAGAAGAAACAUGUGCCUAUUAUAAAACAUGUAAACAAGAAAACAUAUAU_______________
..(((((..............((((.((.(((((((....))))))))).))))..((((((............))))))...........)))))................. (-18.22 = -18.67 +   0.45)

alignment

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secondary structure

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dotplot

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Window 9

Location 4,248,446 – 4,248,559
Length 113
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 82.10
Mean single sequence MFE -20.33
Consensus MFE -14.25
Energy contribution -14.37
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.97
Structure conservation index 0.70
SVM decision value 1.95
SVM RNA-class probability 0.983496
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4248446 113 - 23771897
AAUGUAUGUAUGUUUAUAUACGUUUUCUUGUUUACAUGUUUUAUUAUAGGCACAUGUUUCUUCAUCUAGGAUCAACUGAUCUUAUGAUGAAAUGACAUUUCUCUUCCAUAUUU
((((((((((....))))))))))............(((((......))))).(((((..(((((((((((((....))))))).))))))..)))))............... ( -26.60)
>DroSec_CAF1 10173 98 - 1
---------------AUAUAUGUUUUCUUGUUUACAUGUUUUAUAAUAGGCACAUGUUUCUUCUUCUAGGAUCAACUGAUCCUAUGAUGAUAUGUCAUUUCUCUUCCAUAUUA
---------------..(((((...............((((......))))(((((((...((...(((((((....))))))).)).)))))))...........))))).. ( -17.20)
>DroSim_CAF1 10447 91 - 1
---------------AUAUAUGUU-------UUACAUGUUUUAUAAUAGGCACAUGUUUCUUCUUCUAGGAUCAACUGAUCCUAUGAUGAAAUGUCAUUUCUCUUCCAUAUUA
---------------..(((((..-------..((((((.((......)).))))))...(((.(((((((((....))))))).)).)))...............))))).. ( -17.20)
>consensus
_______________AUAUAUGUUUUCUUGUUUACAUGUUUUAUAAUAGGCACAUGUUUCUUCUUCUAGGAUCAACUGAUCCUAUGAUGAAAUGUCAUUUCUCUUCCAUAUUA
.................(((((...........((((((.((......)).))))))....((.(((((((((....))))))).)).))................))))).. (-14.25 = -14.37 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:21 2006