Locus 4727

Sequence ID 3L_DroMel_CAF1
Location 13,315,283 – 13,315,415
Length 132
Max. P 0.701994
window7445 window7446

overview

Window 5

Location 13,315,283 – 13,315,376
Length 93
Sequences 3
Columns 93
Reading direction forward
Mean pairwise identity 96.42
Mean single sequence MFE -31.85
Consensus MFE -26.93
Energy contribution -27.60
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.36
Structure conservation index 0.85
SVM decision value 0.35
SVM RNA-class probability 0.701994
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13315283 93 + 23771897
ACGGCUGCAUCAUGGGAGUAACUUAAGUAAAUGUCAGUGCUUUUAGUUCCCCACUGCAUGUGCAGUGCCACUUUGGCCCCUACCAAAUGGCCA
...(((((((((((((.(.((((.(((((........)))))..))))))))).))...)))))))((((.(((((......))))))))).. ( -30.20)
>DroEre_CAF1 544 93 + 1
ACGGCUGCAUCAGGGGAGUAACUUAAGUAAAUGUCAGUGCUUUUAGUUCCCAACUGCAUGUGCAGUGCCACUUUGGCCCCGGCCAAAUGGCCA
...((((((((((((((...(((.(((((........)))))..)))))))..)))...)))))))((((.((((((....)))))))))).. ( -34.30)
>DroYak_CAF1 376 93 + 1
ACGGCUGCAUCAGGGGAGUAACUUAAGUAAAUGUCAGUGCUUUUAGUUCCGCACUGCAUGUGCAGUGCCACUUUGGCCCCGACCAAAUGGCCA
..((((......((((.(.((((.(((((........)))))..)))).)(((((((....)))))))........))))........)))). ( -31.04)
>consensus
ACGGCUGCAUCAGGGGAGUAACUUAAGUAAAUGUCAGUGCUUUUAGUUCCCCACUGCAUGUGCAGUGCCACUUUGGCCCCGACCAAAUGGCCA
...((((((((((((((...(((.(((((........)))))..)))))))..)))...)))))))((((.(((((......))))))))).. (-26.93 = -27.60 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 13,315,296 – 13,315,415
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -32.97
Consensus MFE -26.47
Energy contribution -26.37
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -2.12
Structure conservation index 0.80
SVM decision value -0.04
SVM RNA-class probability 0.512724
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13315296 119 + 23771897
GGGAGUAACUUAAGUAAAUGUCAGUGCUUUUAGUUCCCCACUGCAUGUGCAGUGCCACUUUGGCCCCUACCAAAUGGCCAAAAAGCCAAAAAC-AAUCCAGACCCGCAAUCUCAGACAUC
(((.(.((((.(((((........)))))..))))))))(((((....)))))((((.(((((......)))))))))...............-.......................... ( -26.40)
>DroEre_CAF1 557 118 + 1
GGGAGUAACUUAAGUAAAUGUCAGUGCUUUUAGUUCCCAACUGCAUGUGCAGUGCCACUUUGGCCCCGGCCAAAUGGCCAAAAGGCCAAAAACC-AUCCC-UCCCGCAAUCUCAGACAUC
(((((.((((.(((((........)))))..))))....(((((....))))).....(((((((..((((....))))....)))))))....-....)-))))............... ( -36.20)
>DroYak_CAF1 389 120 + 1
GGGAGUAACUUAAGUAAAUGUCAGUGCUUUUAGUUCCGCACUGCAUGUGCAGUGCCACUUUGGCCCCGACCAAAUGGCCAAAGAGCCAAAAAACAAUCCCGUCCCGCAAUCUCAGACAUC
(((((.((((.(((((........)))))..)))).)(((((((....)))))))..((((((((..........)))))))).............))))(((...........)))... ( -36.30)
>consensus
GGGAGUAACUUAAGUAAAUGUCAGUGCUUUUAGUUCCCCACUGCAUGUGCAGUGCCACUUUGGCCCCGACCAAAUGGCCAAAAAGCCAAAAACCAAUCCCGUCCCGCAAUCUCAGACAUC
((((...((....))........(.((((((........(((((....)))))((((.(((((......)))))))))..)))))))..............))))............... (-26.47 = -26.37 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:44 2006