Locus 248

Sequence ID 3R_DroMel_CAF1
Location 967,411 – 967,547
Length 136
Max. P 0.543831
window436 window437

overview

Window 6

Location 967,411 – 967,507
Length 96
Sequences 3
Columns 96
Reading direction forward
Mean pairwise identity 93.68
Mean single sequence MFE -25.54
Consensus MFE -24.00
Energy contribution -23.56
Covariance contribution -0.44
Combinations/Pair 1.08
Mean z-score -1.48
Structure conservation index 0.94
SVM decision value -0.03
SVM RNA-class probability 0.515972
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 967411 96 + 27905053
CUCUAGCACAAAUCGGCUUUGAAAAGGGGCACACAAUAGUUGGAGAAGAAGUGCCCAGCGAAAGUUGUAUUGGGCUACAUCUUUUGUGGUUAAGUU
(((((((........(((((.....)))))........)))))))((((.(((((((((....)).....))))).)).))))............. ( -25.59)
>DroSec_CAF1 13712 93 + 1
CUCUAGCACAAAUCGGCUUUGAAAAGGGGCACACAAUAGUUGGAGA---AGUACCCAGCGAAAGUUGUAUUGGGCUACAUCAUUUGUAGUAAGGUU
(((((((........(((((.....)))))........))))))).---...(((((((....))))......((((((.....))))))..))). ( -25.29)
>DroSim_CAF1 14204 93 + 1
CUCUAGCACAAAUCGGCUUUGAAAAGGGGCUCACAAUAGUUGGAGA---AGUACCCAGCGAAAGUUGUAUUGGGCUACAUCAUUUGUAGUAAGGUU
(((((((.......((((((.....)))))).......))))))).---...(((((((....))))......((((((.....))))))..))). ( -25.74)
>consensus
CUCUAGCACAAAUCGGCUUUGAAAAGGGGCACACAAUAGUUGGAGA___AGUACCCAGCGAAAGUUGUAUUGGGCUACAUCAUUUGUAGUAAGGUU
(((((((........(((((.....)))))........)))))))..........((((....)))).(((..((((((.....))))))..))). (-24.00 = -23.56 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 967,447 – 967,547
Length 100
Sequences 3
Columns 100
Reading direction forward
Mean pairwise identity 83.04
Mean single sequence MFE -18.33
Consensus MFE -15.34
Energy contribution -14.90
Covariance contribution -0.44
Combinations/Pair 1.10
Mean z-score -1.34
Structure conservation index 0.84
SVM decision value 0.02
SVM RNA-class probability 0.543831
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 967447 100 + 27905053
UAGUUGGAGAAGAAGUGCCCAGCGAAAGUUGUAUUGGGCUACAUCUUUUGUGGUUAAGUUAAUAUGUCAUUAGAGAGAAAUUUCAAAAUUAUAAUAUAGU
(((..(.((((((.(((((((((....)).....))))).)).)))))).)..)))................((((....))))................ ( -23.40)
>DroSec_CAF1 13748 83 + 1
UAGUUGGAGA---AGUACCCAGCGAAAGUUGUAUUGGGCUACAUCAUUUGUAGUAAGGUUAAUAUGUCAUUAGAGAAAAGU-UCAAA-------------
..(((((...---.....)))))((..((((.(((..((((((.....))))))..)))))))...)).............-.....------------- ( -15.80)
>DroSim_CAF1 14240 83 + 1
UAGUUGGAGA---AGUACCCAGCGAAAGUUGUAUUGGGCUACAUCAUUUGUAGUAAGGUUAAUAUGUCAUUAGAGAAAAGU-UCAAA-------------
..(((((...---.....)))))((..((((.(((..((((((.....))))))..)))))))...)).............-.....------------- ( -15.80)
>consensus
UAGUUGGAGA___AGUACCCAGCGAAAGUUGUAUUGGGCUACAUCAUUUGUAGUAAGGUUAAUAUGUCAUUAGAGAAAAGU_UCAAA_____________
..(((((.(........))))))((..((((.(((..((((((.....))))))..)))))))...))................................ (-15.34 = -14.90 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:38 2006