Locus 900

Sequence ID 3R_DroMel_CAF1
Location 3,039,266 – 3,039,359
Length 93
Max. P 0.929861
window1430 window1431

overview

Window 0

Location 3,039,266 – 3,039,359
Length 93
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 87.27
Mean single sequence MFE -29.15
Consensus MFE -22.88
Energy contribution -23.02
Covariance contribution 0.14
Combinations/Pair 1.08
Mean z-score -3.34
Structure conservation index 0.78
SVM decision value 1.07
SVM RNA-class probability 0.909896
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3039266 93 + 27905053
CCCGACUGAUUAUCAACUUAAUCAGCAGCGGCUAAUUGCGGUCUGCC----GCCACAUUUGCACUUAGCCCAACUGCAAUAAGUGCAGCUAAGUUGG
.(((((((((((......)))))(((.(((((..((....))..)))----))......((((((((((......))..))))))))))).)))))) ( -32.20)
>DroSec_CAF1 26218 89 + 1
----ACUGAUUAUCAACUUAAUCAGCAGCGGCUAAUUGCGGUCUGCC----GCCACAUUUGCACUUAGCCCAACUGCAAUAAGUGCAGCUAAGUUGA
----.(((((((......)))))))((((((((....((((....))----)).......(((((((((......))..)))))))))))..)))). ( -28.90)
>DroSim_CAF1 26456 89 + 1
----ACUGAUUAUCAACUUAAUCAGCAGCGGCUAAUUGCGGUCUGCC----GCCACAUUUGCACUUAGCCCAACUGCAAUAAGUGCAGCUAAGUUGA
----.(((((((......)))))))((((((((....((((....))----)).......(((((((((......))..)))))))))))..)))). ( -28.90)
>DroEre_CAF1 27328 89 + 1
----GUUGAUUAUCAACUUAAUCAGCAGCGGCUAAUUGCGGUCUGCC----GCCACAUUUGCACUUAGCCCAACUGCAAUAAGUGCAGCUAAGUUGG
----((((((((......))))))))..(((((....((((....))----)).....(((((((((((......))..)))))))))...))))). ( -29.10)
>DroYak_CAF1 27721 93 + 1
----GCUGAUUAUCAACUUAAUCAGCAGCGGCUAAUUGCGGUCUGCCAUUUGCCACAUUUGCACUUAACCCAACGGCAAUAAGUGCAGCUAAGUUGG
----((((((((......))))))))((((((.(((.((.....)).))).))).....((((((((.((....))...)))))))))))....... ( -31.20)
>DroAna_CAF1 28911 79 + 1
----UGUGAUUAUCAACUUAAUCAACGUAGGCUAAUUGCAGUCUGGU----GCUGCAUUUGCACUUAAC----------UAAGUGCAGCUAAGUUGG
----.........(((((((....((.((((((......))))))))----((((((((((........----------))))))))))))))))). ( -24.60)
>consensus
____ACUGAUUAUCAACUUAAUCAGCAGCGGCUAAUUGCGGUCUGCC____GCCACAUUUGCACUUAGCCCAACUGCAAUAAGUGCAGCUAAGUUGG
............((((((((....(((((.((.....)).).))))............(((((((((............))))))))).)))))))) (-22.88 = -23.02 +   0.14)

alignment

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secondary structure

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dotplot

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Window 1

Location 3,039,266 – 3,039,359
Length 93
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 87.27
Mean single sequence MFE -30.10
Consensus MFE -24.48
Energy contribution -24.15
Covariance contribution -0.33
Combinations/Pair 1.14
Mean z-score -3.02
Structure conservation index 0.81
SVM decision value 1.20
SVM RNA-class probability 0.929861
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3039266 93 - 27905053
CCAACUUAGCUGCACUUAUUGCAGUUGGGCUAAGUGCAAAUGUGGC----GGCAGACCGCAAUUAGCCGCUGCUGAUUAAGUUGAUAAUCAGUCGGG
......((((((((.....))))))))((((((..((....)).((----((....))))..)))))).((((((((((......))))))).))). ( -32.40)
>DroSec_CAF1 26218 89 - 1
UCAACUUAGCUGCACUUAUUGCAGUUGGGCUAAGUGCAAAUGUGGC----GGCAGACCGCAAUUAGCCGCUGCUGAUUAAGUUGAUAAUCAGU----
(((((((((.((((((((..((......))))))))))...(..((----(((.((......)).)))))..)...)))))))))........---- ( -31.90)
>DroSim_CAF1 26456 89 - 1
UCAACUUAGCUGCACUUAUUGCAGUUGGGCUAAGUGCAAAUGUGGC----GGCAGACCGCAAUUAGCCGCUGCUGAUUAAGUUGAUAAUCAGU----
(((((((((.((((((((..((......))))))))))...(..((----(((.((......)).)))))..)...)))))))))........---- ( -31.90)
>DroEre_CAF1 27328 89 - 1
CCAACUUAGCUGCACUUAUUGCAGUUGGGCUAAGUGCAAAUGUGGC----GGCAGACCGCAAUUAGCCGCUGCUGAUUAAGUUGAUAAUCAAC----
.((((((((.((((((((..((......))))))))))...(..((----(((.((......)).)))))..)...)))))))).........---- ( -30.80)
>DroYak_CAF1 27721 93 - 1
CCAACUUAGCUGCACUUAUUGCCGUUGGGUUAAGUGCAAAUGUGGCAAAUGGCAGACCGCAAUUAGCCGCUGCUGAUUAAGUUGAUAAUCAGC----
..........((((((((..(((....)))))))))))...(((((.(((.((.....)).))).))))).((((((((......))))))))---- ( -31.60)
>DroAna_CAF1 28911 79 - 1
CCAACUUAGCUGCACUUA----------GUUAAGUGCAAAUGCAGC----ACCAGACUGCAAUUAGCCUACGUUGAUUAAGUUGAUAAUCACA----
.(((((((..(((((((.----------...)))))))..((((((----....).)))))((((((....))))))))))))).........---- ( -22.00)
>consensus
CCAACUUAGCUGCACUUAUUGCAGUUGGGCUAAGUGCAAAUGUGGC____GGCAGACCGCAAUUAGCCGCUGCUGAUUAAGUUGAUAAUCAGU____
.(((((((..((((((((..((......))))))))))..(((((...........)))))((((((....)))))))))))))............. (-24.48 = -24.15 +  -0.33)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:59 2006