Locus 1428

Sequence ID 2R_DroMel_CAF1
Location 5,497,508 – 5,497,599
Length 91
Max. P 0.566902
window2440 window2441

overview

Window 0

Location 5,497,508 – 5,497,599
Length 91
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 86.74
Mean single sequence MFE -35.67
Consensus MFE -24.46
Energy contribution -25.03
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.58
Structure conservation index 0.69
SVM decision value 0.07
SVM RNA-class probability 0.566902
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5497508 91 + 20766785
GGAUGCCCACUUGAGGAGUUGUCCUUUAAU----GGGUGAGGCGCGGAAGUGCAGGACUUCCUGGUGUCCUUGAACGACCGGAGCUGAUCUAAAU
(((((((((...(((((....)))))...)----))))..(((.(((..((..(((((........)))))...))..)))..))).)))).... ( -31.50)
>DroSim_CAF1 16252 91 + 1
GGAUGCCCACUUGAGGAGUUGUCCUUUAAU----GGGCGAGGCGCGGAAGUGCAGGACUUCCUGGUGUCCUUGAGCGACCGGGGCAGAUCUUAAU
...((((((...(((((....)))))...)----)))))..((((....))))(((((((((((((((......)).))))))).)).))))... ( -36.70)
>DroEre_CAF1 16221 95 + 1
GGAUGCCCACUUGAGGAGUUGUCCUUCCUUGGGAGGGAGGGACGCGGAAGUGCGGGACUUCCUGGUGUCCUUGAGCGAUCGGAGCAGCUCUAAGU
.....(((.((..(((((......)))))..)).)))((((((((((((((.....))))))..))))))))((((..........))))..... ( -38.90)
>DroYak_CAF1 17194 91 + 1
GGAUGCCCACUUGAGGAGUGGUCCUUUAAC----GGGAGACGCGCGGAAGUGCAGGACUUCCUGGUGUCCUUGACGGACCGGAGCAGCUCUAGAU
((((((((((((...))))(((((.(((..----((((.((((((....))))(((....))).)).))))))).))))))).)))..))).... ( -35.60)
>consensus
GGAUGCCCACUUGAGGAGUUGUCCUUUAAU____GGGAGAGGCGCGGAAGUGCAGGACUUCCUGGUGUCCUUGAGCGACCGGAGCAGAUCUAAAU
(((((((.....(((((....)))))........(((((..((((....))))....))))).)))))))..........(((.....))).... (-24.46 = -25.03 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 5,497,508 – 5,497,599
Length 91
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 86.74
Mean single sequence MFE -28.10
Consensus MFE -17.91
Energy contribution -17.98
Covariance contribution 0.06
Combinations/Pair 1.14
Mean z-score -1.82
Structure conservation index 0.64
SVM decision value 0.03
SVM RNA-class probability 0.547326
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5497508 91 - 20766785
AUUUAGAUCAGCUCCGGUCGUUCAAGGACACCAGGAAGUCCUGCACUUCCGCGCCUCACCC----AUUAAAGGACAACUCCUCAAGUGGGCAUCC
.....((...((...(((.(((....)))))).((((((.....))))))))...)).(((----(((..((((....))))..))))))..... ( -27.40)
>DroSim_CAF1 16252 91 - 1
AUUAAGAUCUGCCCCGGUCGCUCAAGGACACCAGGAAGUCCUGCACUUCCGCGCCUCGCCC----AUUAAAGGACAACUCCUCAAGUGGGCAUCC
...............((.(((....((...)).((((((.....)))))))))))..((((----(((..((((....))))..))))))).... ( -30.10)
>DroEre_CAF1 16221 95 - 1
ACUUAGAGCUGCUCCGAUCGCUCAAGGACACCAGGAAGUCCCGCACUUCCGCGUCCCUCCCUCCCAAGGAAGGACAACUCCUCAAGUGGGCAUCC
.........(((((.....(((..((((.....((((((.....))))))..((((.(((.......))).))))...))))..))))))))... ( -27.70)
>DroYak_CAF1 17194 91 - 1
AUCUAGAGCUGCUCCGGUCCGUCAAGGACACCAGGAAGUCCUGCACUUCCGCGCGUCUCCC----GUUAAAGGACCACUCCUCAAGUGGGCAUCC
.....(((.(((....((((.....))))....((((((.....))))))..))).)))((----......)).(((((.....)))))...... ( -27.20)
>consensus
AUUUAGAGCUGCUCCGGUCGCUCAAGGACACCAGGAAGUCCUGCACUUCCGCGCCUCUCCC____AUUAAAGGACAACUCCUCAAGUGGGCAUCC
..........(((((((.(((....((...)).((((((.....)))))))))))...............((((....))))...).)))).... (-17.91 = -17.98 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:35 2006