Locus 1615

Sequence ID 3L_DroMel_CAF1
Location 4,742,128 – 4,742,219
Length 91
Max. P 0.973303
window2496 window2497

overview

Window 6

Location 4,742,128 – 4,742,219
Length 91
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 85.24
Mean single sequence MFE -47.60
Consensus MFE -35.43
Energy contribution -36.43
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -3.52
Structure conservation index 0.74
SVM decision value 1.71
SVM RNA-class probability 0.973303
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4742128 91 + 23771897
---------------------CAGUAGCAGGAAGCAGCUCCAAAGUUGCACACGUCGCCUUCGGAGAGGACUUAAGGCAGCUGAUGCUGGAGCUCCUGUUCCUGAUGCCGCC
---------------------(((.(((((((....((((((.((((((....(((.((....).)..))).....)))))).....))))))))))))).)))........ ( -33.50)
>DroSec_CAF1 2364 106 + 1
GAGCAGGCAUAGGAGCA------GGAGCAGGAAGCAGCUCCAAAGUUGCACACGUCGCCUUCGGAGAGGACUUAAGGCAGCUGAUGCUGGAGCUCCUGUUCCUGAUGCCGCC
..((.((((((((((((------(((((.....((((((....)))))).....(((((((.((......)).)))))(((....))).)))))))))))))).))))))). ( -51.40)
>DroSim_CAF1 2373 112 + 1
GAGCAGGCACAGGAGCAGGAGCAGGAGCAGGAAGCAGCUCCAAAGUUGCACACGUCGCCUUCGGAGAGGACUUAAGGCAGCUGAUGCUGGAGCUCCUGUUCCUGAUGCCGCC
..((.(((((((((((((((((.(((((.(....).)))))......(((((.((.(((((.((......)).))))).)))).)))....))))))))))))).)))))). ( -57.90)
>consensus
GAGCAGGCA_AGGAGCA____CAGGAGCAGGAAGCAGCUCCAAAGUUGCACACGUCGCCUUCGGAGAGGACUUAAGGCAGCUGAUGCUGGAGCUCCUGUUCCUGAUGCCGCC
.....................(((((((((((....((((((.....(((((.((.(((((.((......)).))))).)))).))))))))))))))))))))........ (-35.43 = -36.43 +   1.00)

alignment

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secondary structure

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dotplot

Postscript

Window 7

Location 4,742,128 – 4,742,219
Length 91
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 85.24
Mean single sequence MFE -43.83
Consensus MFE -31.00
Energy contribution -31.00
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -3.04
Structure conservation index 0.71
SVM decision value 1.25
SVM RNA-class probability 0.936037
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4742128 91 - 23771897
GGCGGCAUCAGGAACAGGAGCUCCAGCAUCAGCUGCCUUAAGUCCUCUCCGAAGGCGACGUGUGCAACUUUGGAGCUGCUUCCUGCUACUG---------------------
..(((...(((((..((.(((((((((((..(.((((((..(......)..)))))).)..)))).....))))))).)))))))...)))--------------------- ( -32.20)
>DroSec_CAF1 2364 106 - 1
GGCGGCAUCAGGAACAGGAGCUCCAGCAUCAGCUGCCUUAAGUCCUCUCCGAAGGCGACGUGUGCAACUUUGGAGCUGCUUCCUGCUCC------UGCUCCUAUGCCUGCUC
((((((((.((((.(((((((..((((....))))....((((...(((((((((((.....)))..))))))))..))))...)))))------)).))))))))).))). ( -46.50)
>DroSim_CAF1 2373 112 - 1
GGCGGCAUCAGGAACAGGAGCUCCAGCAUCAGCUGCCUUAAGUCCUCUCCGAAGGCGACGUGUGCAACUUUGGAGCUGCUUCCUGCUCCUGCUCCUGCUCCUGUGCCUGCUC
(((((((.(((((.(((((((....((((..(.((((((..(......)..)))))).)..))))......(((((........))))).))))))).))))))))).))). ( -52.80)
>consensus
GGCGGCAUCAGGAACAGGAGCUCCAGCAUCAGCUGCCUUAAGUCCUCUCCGAAGGCGACGUGUGCAACUUUGGAGCUGCUUCCUGCUCCUG____UGCUCCU_UGCCUGCUC
........(((((..((.(((((((((((..(.((((((..(......)..)))))).)..)))).....))))))).)))))))........................... (-31.00 = -31.00 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:56 2006