Locus 3513

Sequence ID X_DroMel_CAF1
Location 9,428,880 – 9,428,972
Length 92
Max. P 0.988599
window5749 window5750

overview

Window 9

Location 9,428,880 – 9,428,972
Length 92
Sequences 3
Columns 92
Reading direction forward
Mean pairwise identity 85.66
Mean single sequence MFE -24.17
Consensus MFE -23.02
Energy contribution -23.13
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -1.90
Structure conservation index 0.95
SVM decision value 1.64
SVM RNA-class probability 0.969467
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9428880 92 + 22224390
AAGUGAAAGAAGAAGAGUGAAGAGUGGAGAGAGCGUGAGGCGGAGGGAGUUGUAGUUGGAGCUGCUUUAAGCUAGACGUCAUCGCACUCUCG
............................(((((.((((((((...((..(.(((((....)))))...)..))...)))).)))).))))). ( -25.50)
>DroSec_CAF1 10632 81 + 1
-------AG----AUGGUGAAGGGUUGAGAGAGCGUGAGGCGGAGGGAGUUGUAUUUGUAGCUGCUUUAAGCUAAACGUCAUCGCACUCUCG
-------..----...............(((((.((((((((((((.(((((......))))).))))........)))).)))).))))). ( -23.30)
>DroSim_CAF1 11403 81 + 1
-------AG----AUGGUGAAGGGUUGAGAGAGCGUGAGGCGGAGGGAGUUGUAGUUGUAGCUGCUUUAAGCUAAACGUCAUCGCACUCUUG
-------..----......((((((.(.((..((((..(((.((((.(((((......))))).))))..)))..))))..)).))))))). ( -23.70)
>consensus
_______AG____AUGGUGAAGGGUUGAGAGAGCGUGAGGCGGAGGGAGUUGUAGUUGUAGCUGCUUUAAGCUAAACGUCAUCGCACUCUCG
............................(((((.((((((((...((..(.(((((....)))))...)..))...)))).)))).))))). (-23.02 = -23.13 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 9,428,880 – 9,428,972
Length 92
Sequences 3
Columns 92
Reading direction reverse
Mean pairwise identity 85.66
Mean single sequence MFE -15.31
Consensus MFE -14.37
Energy contribution -15.04
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.53
Structure conservation index 0.94
SVM decision value 2.13
SVM RNA-class probability 0.988599
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9428880 92 - 22224390
CGAGAGUGCGAUGACGUCUAGCUUAAAGCAGCUCCAACUACAACUCCCUCCGCCUCACGCUCUCUCCACUCUUCACUCUUCUUCUUUCACUU
.(((((.(((.(((.((...((.....))((......))............)).)))))).))))).......................... ( -15.50)
>DroSec_CAF1 10632 81 - 1
CGAGAGUGCGAUGACGUUUAGCUUAAAGCAGCUACAAAUACAACUCCCUCCGCCUCACGCUCUCUCAACCCUUCACCAU----CU-------
.(((((.(((.(((.((.(((((......))))).................)).)))))).))))).............----..------- ( -17.47)
>DroSim_CAF1 11403 81 - 1
CAAGAGUGCGAUGACGUUUAGCUUAAAGCAGCUACAACUACAACUCCCUCCGCCUCACGCUCUCUCAACCCUUCACCAU----CU-------
..((((.(((.(((.((.(((((......))))).................)).)))))).))))..............----..------- ( -12.97)
>consensus
CGAGAGUGCGAUGACGUUUAGCUUAAAGCAGCUACAACUACAACUCCCUCCGCCUCACGCUCUCUCAACCCUUCACCAU____CU_______
.(((((.(((.(((.((.(((((......))))).................)).)))))).))))).......................... (-14.37 = -15.04 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:15 2006