Locus 5858

Sequence ID 3L_DroMel_CAF1
Location 15,796,762 – 15,796,862
Length 100
Max. P 0.809459
window9340 window9341

overview

Window 0

Location 15,796,762 – 15,796,862
Length 100
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 79.49
Mean single sequence MFE -20.03
Consensus MFE -14.68
Energy contribution -14.80
Covariance contribution 0.12
Combinations/Pair 1.13
Mean z-score -1.60
Structure conservation index 0.73
SVM decision value 0.40
SVM RNA-class probability 0.720160
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15796762 100 + 23771897
-CUUAUUGUUAAACCAAGUUUGACC-AUCGAGCUGAAUGAACCAACUCGAAUUAAUCGCUUAGAUAAGGGAGU----UAAAACACAAGUAGACUCUCAAUAACAAC
-....((((((....((((......-.(((((.((.......)).))))).......))))......((((((----(...((....)).)))))))..)))))). ( -18.84)
>DroAna_CAF1 816 106 + 1
UAUUAUUGUUGAACCAAGUUUGACCCUUCGAGCCGAUGGAACGUACUCGAAAUAAUUGCUAACCGGAGGGAGAACCCAAAAAAAAAAGGAGUCUCUCAGUAACAAC
.....((((((..((.(((.......((((((.((......))..))))))......)))....)).((((((..((..........))..))))))..)))))). ( -20.72)
>DroYak_CAF1 1037 100 + 1
-AUUAUUGUUAAACCAAGUUUGACC-AUCGAGCUGAAAGAACCAACUCGAAUUAAUUGCUUAGAUAAGAGAGU----UGAAACACAACCAGACUCUCAAUAACAAC
-....((((((....((((......-.(((((.((.......)).))))).......))))......((((((----(............)))))))..)))))). ( -20.54)
>consensus
_AUUAUUGUUAAACCAAGUUUGACC_AUCGAGCUGAAAGAACCAACUCGAAUUAAUUGCUUAGAUAAGGGAGU____UAAAACACAAGCAGACUCUCAAUAACAAC
.....((((((....((((........(((((.((.......)).))))).......))))......((((((..................))))))..)))))). (-14.68 = -14.80 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 15,796,762 – 15,796,862
Length 100
Sequences 3
Columns 106
Reading direction reverse
Mean pairwise identity 79.49
Mean single sequence MFE -26.93
Consensus MFE -15.54
Energy contribution -16.10
Covariance contribution 0.56
Combinations/Pair 1.10
Mean z-score -2.35
Structure conservation index 0.58
SVM decision value 0.64
SVM RNA-class probability 0.809459
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15796762 100 - 23771897
GUUGUUAUUGAGAGUCUACUUGUGUUUUA----ACUCCCUUAUCUAAGCGAUUAAUUCGAGUUGGUUCAUUCAGCUCGAU-GGUCAAACUUGGUUUAACAAUAAG-
(((((((....((((..((....))....----))))......(((((.(((((..(((((((((.....))))))))))-))))...)))))..)))))))...- ( -24.40)
>DroAna_CAF1 816 106 - 1
GUUGUUACUGAGAGACUCCUUUUUUUUUUGGGUUCUCCCUCCGGUUAGCAAUUAUUUCGAGUACGUUCCAUCGGCUCGAAGGGUCAAACUUGGUUCAACAAUAAUA
((((..((..((.(((((...........(((....)))................(((((((.((......))))))))))))))...))..)).))))....... ( -27.70)
>DroYak_CAF1 1037 100 - 1
GUUGUUAUUGAGAGUCUGGUUGUGUUUCA----ACUCUCUUAUCUAAGCAAUUAAUUCGAGUUGGUUCUUUCAGCUCGAU-GGUCAAACUUGGUUUAACAAUAAU-
(((((((.((((((...(((((.....))----))))))))).(((((........(((((((((.....))))))))).-.......)))))..)))))))...- ( -28.69)
>consensus
GUUGUUAUUGAGAGUCUACUUGUGUUUUA____ACUCCCUUAUCUAAGCAAUUAAUUCGAGUUGGUUCAUUCAGCUCGAU_GGUCAAACUUGGUUUAACAAUAAU_
((((..((..((................................(((....)))..(((((((((.....))))))))).........))..)).))))....... (-15.54 = -16.10 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:15 2006