Locus 4672

Sequence ID X_DroMel_CAF1
Location 12,192,892 – 12,193,103
Length 211
Max. P 0.995131
window7665 window7666

overview

Window 5

Location 12,192,892 – 12,193,008
Length 116
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 84.15
Mean single sequence MFE -34.70
Consensus MFE -21.42
Energy contribution -22.90
Covariance contribution 1.48
Combinations/Pair 1.16
Mean z-score -2.47
Structure conservation index 0.62
SVM decision value 0.73
SVM RNA-class probability 0.835075
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12192892 116 + 22224390
GGCAUUAAGUGUUUGCUGCCGCUGCCGGGUUCUCUUUUAAUUUCUGGCAGCAUUAUUCGGAUUUGGACAUCGAUUCAGAUGGAGAUU---GGCAUUUGCUAUCACUUUGGCUGCAUUUG
(((...(((((...(((((((((((((((.............)))))))))........(((((...((((......)))).)))))---))))...))...)))))..)))....... ( -37.42)
>DroSec_CAF1 19312 113 + 1
GGCAUUAAGUGUUUGCUGCCGCUGCCGGGU---CUUUUAAUUUCUGGUAGCAUUAUUCGGAUUUGGACAUGGAUUCGGAUGGAGAUU---GGCUUUUGCUUUCACUUUAGCUGCAUUUG
.(((..(((((...((.((((((((((((.---.........))))))))).((((((((((((......)))))))))))).....---)))....))...)))))....)))..... ( -38.80)
>DroSim_CAF1 20519 113 + 1
GGCAUUAAGUGUUUGCUGCCGCUGCCGGGU---CUUUUAAUUUCUGGCAGCAUUAUUCGGAUUUGGACAUGGAUUCGGAUGGAGAUU---GGCUUUUGCUUUCACUUUAGCUGCAUUUG
.(((..(((((...((.((((((((((((.---.........))))))))).((((((((((((......)))))))))))).....---)))....))...)))))....)))..... ( -40.80)
>DroEre_CAF1 18794 110 + 1
GGCAUUAAGUGUUUGCUGCCCCUGUCGGCU---CUUUUAAUUUCUGGCAGCGUUAUUCGGAUUUG------GAUUCAGUUGGAGAUUUUCGGCAGCGGCUUUCACUUUUGCUGCAUUUG
((((..(((((...(((((...((((((..---.....((((((..((..((.....))((....------...)).))..)))))).)))))))))))...))))).))))....... ( -31.10)
>DroYak_CAF1 3824 102 + 1
GGCAUCAAGUGUUUGUUG-----GUUGGGU---CUUUUAAUUUCUGCCAGCAUUAUUCGCACUUG------GAUUUAGAUGGAGAUU---GGCUUUUAGCUUCACUUUAGCUGCAUUUG
(((.((((((((.(((((-----((.(((.---........))).)))))))......)))))))------).......(((((...---(((.....)))...))))))))....... ( -25.40)
>consensus
GGCAUUAAGUGUUUGCUGCCGCUGCCGGGU___CUUUUAAUUUCUGGCAGCAUUAUUCGGAUUUGGACAU_GAUUCAGAUGGAGAUU___GGCUUUUGCUUUCACUUUAGCUGCAUUUG
(((...(((((...((.((((((((((((.............))))))))).(((((.(((((........))))).)))))........)))....))...)))))..)))....... (-21.42 = -22.90 +   1.48)

alignment

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secondary structure

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dotplot

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Window 6

Location 12,193,008 – 12,193,103
Length 95
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 75.24
Mean single sequence MFE -28.93
Consensus MFE -8.57
Energy contribution -10.21
Covariance contribution 1.64
Combinations/Pair 1.23
Mean z-score -2.58
Structure conservation index 0.30
SVM decision value 2.54
SVM RNA-class probability 0.995131
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12193008 95 + 22224390
ACAAGUGACUUUGUUAUGGUUAUGUGCUGCCUGAAGUCGAGGGGAGAAAUCG---UCGUUGGUUGGCGGGGUGCAUAAUUUAGCGUUUGUUUGUCUGU
(((((..(...(((((.(((((((..(..((((.(..(((((.((....)).---)).)))..)..)))))..)))))))))))).)..))))).... ( -27.60)
>DroSec_CAF1 19425 93 + 1
ACAAGUGACUUUGUUAUGGUUAUGUGUUGCCCGAUGUCG--GGGAGAAAUCG---UCGAUGGAGGGCGGGGUGCAUAAUUUAGCGUUUAUUUGUCUGU
((((((((...(((((.(((((((..((((((..(((((--(.((....)).---))))))..)))))..)..)))))))))))).)))))))).... ( -35.20)
>DroSim_CAF1 20632 93 + 1
ACAAGUGACUUUGUUAUGGUUAUGUGUUGCCCGAAGUCG--GGGAGAAAUCG---UCGAUGGAUGGCGGGGUGCAUAAUUUAGCGUUUAUUUGUCUGU
((((((((...(((((.(((((((..((.((((..((((--(.((....)).---)))))...))).).))..)))))))))))).)))))))).... ( -30.80)
>DroEre_CAF1 18904 89 + 1
ACAAGUGACUUUGUUAUGGUUAUGUGAUGUCUGAAGUCU--GGCAAAAAUCGAAGUCGAU----G---GGGUGCAUAACUUAGCGUUUGCUUGUCUGU
(((((..(...(((((.((((((((..((((........--))))...((((....))))----.---....))))))))))))).)..))))).... ( -24.00)
>DroAna_CAF1 31109 87 + 1
ACAAGUGACUUACUUUGCGGCCUUUGCCACCAGAAGCGG--CACAAAAGUCG------CG-GUCUGGGGCCUGAAUAAUUUACCAUUUGUUUGUCU--
(((((((..........(((.....(((.(((((.((((--(......))))------).-.)))))))))))..........)))))))......-- ( -27.05)
>consensus
ACAAGUGACUUUGUUAUGGUUAUGUGCUGCCCGAAGUCG__GGGAGAAAUCG___UCGAUGGAUGGCGGGGUGCAUAAUUUAGCGUUUGUUUGUCUGU
((((((((...(((((.((((((((.(((((.................................)))))...))))))))))))).)))))))).... ( -8.57 = -10.21 +   1.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:38 2006