Locus 3223

Sequence ID 2R_DroMel_CAF1
Location 10,999,779 – 10,999,875
Length 96
Max. P 0.988390
window5296 window5297

overview

Window 6

Location 10,999,779 – 10,999,875
Length 96
Sequences 3
Columns 96
Reading direction forward
Mean pairwise identity 92.28
Mean single sequence MFE -36.40
Consensus MFE -29.34
Energy contribution -29.23
Covariance contribution -0.11
Combinations/Pair 1.06
Mean z-score -2.80
Structure conservation index 0.81
SVM decision value 0.70
SVM RNA-class probability 0.827945
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10999779 96 + 20766785
UCGAACAGCAAGUUGCUGCUUUUGGUCGCUUGUUGCUAGUUGCAAGUUGCUGCCGGGGCAGCUGUUGUUGUUGUUACUGGCGUGCGUAGUUGCUAA
.....((((((((.(((......))).))))))))......((((.((((((((((((((((.......)))))).)))))).))).).))))... ( -34.10)
>DroEre_CAF1 115279 93 + 1
GCGAGCAGCUAGUUGCUGCUUUUGGUCGCUUGUUGCUAGUUGCAAGUUGCUGCCGGGACAGCUGUUGUUGU---UGCUGGCGUGCGUAGUUGCGAA
(((((((((((((.((.((........))..)).))))))))).....((((((((((((((....)))))---).)))))).))....))))... ( -38.80)
>DroYak_CAF1 117157 93 + 1
GCGAGCAGCUAGUUACUGCUUUUGGUCGCUUGUUGGUAGUUGCAAGUUGCUGCCGGGGCAGCUGUUGUUGU---UGCUGGCGUGCGUAGUUGCGAA
....(((((((...(((......)))(((.(((..((((..((((...(((((....)))))..))))..)---)))..))).))))))))))... ( -36.30)
>consensus
GCGAGCAGCUAGUUGCUGCUUUUGGUCGCUUGUUGCUAGUUGCAAGUUGCUGCCGGGGCAGCUGUUGUUGU___UGCUGGCGUGCGUAGUUGCGAA
.....((((.(((.(((......))).))).))))....((((((.((((((((((.(((((....))))).....)))))).))).).)))))). (-29.34 = -29.23 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 10,999,779 – 10,999,875
Length 96
Sequences 3
Columns 96
Reading direction reverse
Mean pairwise identity 92.28
Mean single sequence MFE -25.07
Consensus MFE -23.43
Energy contribution -23.10
Covariance contribution -0.33
Combinations/Pair 1.15
Mean z-score -3.23
Structure conservation index 0.93
SVM decision value 2.12
SVM RNA-class probability 0.988390
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10999779 96 - 20766785
UUAGCAACUACGCACGCCAGUAACAACAACAACAGCUGCCCCGGCAGCAACUUGCAACUAGCAACAAGCGACCAAAAGCAGCAACUUGCUGUUCGA
...((......)).(((..((.............(((((....)))))....(((.....)))))..)))......((((((.....))))))... ( -24.60)
>DroEre_CAF1 115279 93 - 1
UUCGCAACUACGCACGCCAGCA---ACAACAACAGCUGUCCCGGCAGCAACUUGCAACUAGCAACAAGCGACCAAAAGCAGCAACUAGCUGCUCGC
.((((......((......)).---.........(((((....)))))...((((.....))))...)))).....((((((.....))))))... ( -26.20)
>DroYak_CAF1 117157 93 - 1
UUCGCAACUACGCACGCCAGCA---ACAACAACAGCUGCCCCGGCAGCAACUUGCAACUACCAACAAGCGACCAAAAGCAGUAACUAGCUGCUCGC
.((((......((......)).---.........(((((....)))))...................)))).....((((((.....))))))... ( -24.40)
>consensus
UUCGCAACUACGCACGCCAGCA___ACAACAACAGCUGCCCCGGCAGCAACUUGCAACUAGCAACAAGCGACCAAAAGCAGCAACUAGCUGCUCGC
...((......)).(((.................(((((....)))))...((((.....))))...)))......((((((.....))))))... (-23.43 = -23.10 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:25 2006