Locus 861

Sequence ID 3L_DroMel_CAF1
Location 2,604,560 – 2,604,661
Length 101
Max. P 0.983298
window1324 window1325

overview

Window 4

Location 2,604,560 – 2,604,661
Length 101
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 90.89
Mean single sequence MFE -36.53
Consensus MFE -31.11
Energy contribution -31.31
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.00
Structure conservation index 0.85
SVM decision value 1.94
SVM RNA-class probability 0.983298
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2604560 101 + 23771897
UGUGGCAUGCUUAAGCUGCUUCCAGUUUGGCCAGGCAAACACCUUCAUGGUUAAAAGUGGCCACCUGGAGGAGCUGCACCAGCAUU-------ACUACCUGUGCGCCC
...(((.(((...((((.(((((((..((((((.......(((.....)))......)))))).))))))))))))))...((((.-------.......))))))). ( -38.22)
>DroSec_CAF1 2914 100 + 1
UGUGGCAUGCUUAAGCUGCUUCCAGUUUGGCCAGGCAAACACCUUCAUGGUUAAAAGUGGCCACCUGGAGGAGCUGCACCAGC-UC-------CCAACCCAGGCGCCC
...(((..((....)).((((((((..((((((.......(((.....)))......)))))).)))))(((((((...))))-))-------).......)))))). ( -37.62)
>DroSim_CAF1 5389 100 + 1
UGUGGCAUGCUUAAGCUGCUUCCAGCUUGGCCAGGCAAACACCUUCAUGGUUAAAAGUGGCCACCUGGAGGAGCUGCACCAGC-UC-------CCAACCCACGCGCCC
...(((..((....)).((.(((((..((((((.......(((.....)))......)))))).)))))(((((((...))))-))-------)........))))). ( -37.12)
>DroEre_CAF1 2981 100 + 1
UGUGGCAUGCUUAAGCUGCUUCCAGUUUGGCCAGGCGAACACCUUCAUGGUUAAAAGUGGCCACCUGGAGGAGCUGCACCAUC-UG-------CCCACUCCUGCGCCC
.(((((((((...((((.(((((((..((((((.......(((.....)))......)))))).)))))))))))))).....-))-------.)))).......... ( -34.52)
>DroYak_CAF1 5955 107 + 1
UGUGGCAUGCUUAAGCUGCUUCCAGUUUGGCCAGGCAAACACCUUCAUGGUUAAAAGUGGCCACCUGGAGGAGCAGCACCAUC-UCCCAUCGCCCCACUCGUGCGCCC
...(((........(((.(((((((..((((((.......(((.....)))......)))))).)))))))))).((((....-................))))))). ( -35.17)
>consensus
UGUGGCAUGCUUAAGCUGCUUCCAGUUUGGCCAGGCAAACACCUUCAUGGUUAAAAGUGGCCACCUGGAGGAGCUGCACCAGC_UC_______CCAACCCAUGCGCCC
...(((.......((((.(((((((..((((((.......(((.....)))......)))))).)))))))))))((.........................))))). (-31.11 = -31.31 +   0.20)

alignment

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secondary structure

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dotplot

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Window 5

Location 2,604,560 – 2,604,661
Length 101
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 90.89
Mean single sequence MFE -43.35
Consensus MFE -32.72
Energy contribution -33.00
Covariance contribution 0.28
Combinations/Pair 1.10
Mean z-score -2.69
Structure conservation index 0.75
SVM decision value 1.52
SVM RNA-class probability 0.960605
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2604560 101 - 23771897
GGGCGCACAGGUAGU-------AAUGCUGGUGCAGCUCCUCCAGGUGGCCACUUUUAACCAUGAAGGUGUUUGCCUGGCCAAACUGGAAGCAGCUUAAGCAUGCCACA
.(((((((.((((..-------..)))).))))(((((.(((((.((((((......(((.....))).......))))))..))))).).)))).......)))... ( -41.12)
>DroSec_CAF1 2914 100 - 1
GGGCGCCUGGGUUGG-------GA-GCUGGUGCAGCUCCUCCAGGUGGCCACUUUUAACCAUGAAGGUGUUUGCCUGGCCAAACUGGAAGCAGCUUAAGCAUGCCACA
.(((((.((((((((-------((-((((...)))))))(((((.((((((......(((.....))).......))))))..)))))..))))))).))..)))... ( -44.32)
>DroSim_CAF1 5389 100 - 1
GGGCGCGUGGGUUGG-------GA-GCUGGUGCAGCUCCUCCAGGUGGCCACUUUUAACCAUGAAGGUGUUUGCCUGGCCAAGCUGGAAGCAGCUUAAGCAUGCCACA
.((((.((((...((-------((-((((...))))))))(((((..(.((((((((....)))))))).)..)))))))((((((....))))))..)).))))... ( -48.00)
>DroEre_CAF1 2981 100 - 1
GGGCGCAGGAGUGGG-------CA-GAUGGUGCAGCUCCUCCAGGUGGCCACUUUUAACCAUGAAGGUGUUCGCCUGGCCAAACUGGAAGCAGCUUAAGCAUGCCACA
.(((((((((((..(-------((-.....))).))))))(((((((..((((((((....))))))))..)))))))((.....))..)).((....))..)))... ( -42.80)
>DroYak_CAF1 5955 107 - 1
GGGCGCACGAGUGGGGCGAUGGGA-GAUGGUGCUGCUCCUCCAGGUGGCCACUUUUAACCAUGAAGGUGUUUGCCUGGCCAAACUGGAAGCAGCUUAAGCAUGCCACA
.(((((.(.(((..(((...((((-(.........))))).((((..(.((((((((....)))))))).)..)))))))..))).)..)).((....))..)))... ( -40.50)
>consensus
GGGCGCACGGGUGGG_______GA_GCUGGUGCAGCUCCUCCAGGUGGCCACUUUUAACCAUGAAGGUGUUUGCCUGGCCAAACUGGAAGCAGCUUAAGCAUGCCACA
.(((((((.(((.............))).)))).(((..(((((.((((((......(((.....))).......))))))..)))))))).((....))..)))... (-32.72 = -33.00 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:00 2006