Locus 815

Sequence ID 3L_DroMel_CAF1
Location 2,483,085 – 2,483,204
Length 119
Max. P 0.988166
window1253 window1254

overview

Window 3

Location 2,483,085 – 2,483,204
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 93.36
Mean single sequence MFE -36.00
Consensus MFE -35.24
Energy contribution -35.20
Covariance contribution -0.04
Combinations/Pair 1.11
Mean z-score -1.49
Structure conservation index 0.98
SVM decision value 1.95
SVM RNA-class probability 0.983798
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2483085 119 + 23771897
GGAUUUCCCGGAUGAGUCGGGAGACCAGUUCGCAGCAGGCCUUUUGCCUGUUCUUGGCCACAGCCAUAACCUAGAUGGUGAUAAACAUGAAAGUUAGUGGCUUAAUUUAAUCAACUAGU
((.((((((((.....))))))))))((((.(.(((((((.....))))))))..((((((.(((((.......)))))....(((......))).))))))..........))))... ( -37.30)
>DroSec_CAF1 106580 119 + 1
GGAUUUCCCGGAUGAGUCGGGAGACCAGUUCGCAGCAAGCCUUUUGCCUGUUCUUGGCCACAGCCAUUACCUAGAUGGUAAUAAACAUGAAAGUUAGUGGCUGGAUUUAAUCAACUAGU
((.((((((((.....))))))))))((((.((((((((...)))).))))..(..(((((.((((((.....))))))....(((......))).)))))..)........))))... ( -35.10)
>DroSim_CAF1 101491 119 + 1
GGAUUUCCCGGAUGAGUCGGGAGACCAGUUCGCAGCAGGCCUUUUGCCUGUUCUUGGCCACAGCCAUAACCUAGAUGGUAAUAAAUUUGAAAGUUAGUGGCUUGAUUUAAUUAACUAGU
((.((((((((.....))))))))))((((....((((((.....))))))((..((((((.(((((.......)))))....((((....)))).)))))).)).......))))... ( -35.70)
>DroEre_CAF1 106813 119 + 1
GGAUCUCCCGGAUAAGUCGGGAGACCAGUUCGCAGCAGGCCUUUUGCCUGUUCUUGGCCACAGCCAUAACCUAGAUGGUGAUAAGCAUUAAAGUUAGUGGCUUGAUUUAAUUCACUAGC
((.((((((((.....)))))))))).....(((((((((.....)))))))..((((....))))..(((.....))).....))......(((((((..(((...)))..))))))) ( -40.40)
>DroYak_CAF1 104727 119 + 1
GGAUUUCCCGGAUGAGUCGGGAGACCAGUUCGCAACAUGCCUUCUGCCUGUUCUUGGCCACAGCCAUAACCUAGAUGGUAAUAAACAUGAAUGUUAGUGGCUUGAUUAAAUCAACUAGU
((.((((((((.....))))))))))((((.(.((((.((.....)).)))))..((((((.(((((.......)))))....((((....)))).))))))..........))))... ( -31.50)
>consensus
GGAUUUCCCGGAUGAGUCGGGAGACCAGUUCGCAGCAGGCCUUUUGCCUGUUCUUGGCCACAGCCAUAACCUAGAUGGUAAUAAACAUGAAAGUUAGUGGCUUGAUUUAAUCAACUAGU
((.((((((((.....))))))))))((((.(.(((((((.....))))))))..((((((.(((((.......)))))....(((......))).))))))..........))))... (-35.24 = -35.20 +  -0.04)

alignment

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secondary structure

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dotplot

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Window 4

Location 2,483,085 – 2,483,204
Length 119
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 93.36
Mean single sequence MFE -33.42
Consensus MFE -30.21
Energy contribution -30.97
Covariance contribution 0.76
Combinations/Pair 1.09
Mean z-score -1.75
Structure conservation index 0.90
SVM decision value 2.11
SVM RNA-class probability 0.988166
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2483085 119 - 23771897
ACUAGUUGAUUAAAUUAAGCCACUAACUUUCAUGUUUAUCACCAUCUAGGUUAUGGCUGUGGCCAAGAACAGGCAAAAGGCCUGCUGCGAACUGGUCUCCCGACUCAUCCGGGAAAUCC
(((((((..........(((((.((((((..(((........)))..)))))))))))(..((.......((((.....))))))..).))))))).(((((.......)))))..... ( -35.01)
>DroSec_CAF1 106580 119 - 1
ACUAGUUGAUUAAAUCCAGCCACUAACUUUCAUGUUUAUUACCAUCUAGGUAAUGGCUGUGGCCAAGAACAGGCAAAAGGCUUGCUGCGAACUGGUCUCCCGACUCAUCCGGGAAAUCC
(((((((...........(((((.(((......)))(((((((.....)))))))...)))))......(((((.....))))).....))))))).(((((.......)))))..... ( -32.70)
>DroSim_CAF1 101491 119 - 1
ACUAGUUAAUUAAAUCAAGCCACUAACUUUCAAAUUUAUUACCAUCUAGGUUAUGGCUGUGGCCAAGAACAGGCAAAAGGCCUGCUGCGAACUGGUCUCCCGACUCAUCCGGGAAAUCC
(((((((..........(((((.((((((..................)))))))))))(..((.......((((.....))))))..).))))))).(((((.......)))))..... ( -31.98)
>DroEre_CAF1 106813 119 - 1
GCUAGUGAAUUAAAUCAAGCCACUAACUUUAAUGCUUAUCACCAUCUAGGUUAUGGCUGUGGCCAAGAACAGGCAAAAGGCCUGCUGCGAACUGGUCUCCCGACUUAUCCGGGAGAUCC
((((.(((......)))(((((.((((((..(((........)))..))))))))))).))))......(((((.....))))).........(((((((((.......))))))))). ( -38.50)
>DroYak_CAF1 104727 119 - 1
ACUAGUUGAUUUAAUCAAGCCACUAACAUUCAUGUUUAUUACCAUCUAGGUUAUGGCUGUGGCCAAGAACAGGCAGAAGGCAUGUUGCGAACUGGUCUCCCGACUCAUCCGGGAAAUCC
(((((((.......((.(((((.((((....(((........)))....)))))))))...(((.......))).))..((.....)).))))))).(((((.......)))))..... ( -28.90)
>consensus
ACUAGUUGAUUAAAUCAAGCCACUAACUUUCAUGUUUAUUACCAUCUAGGUUAUGGCUGUGGCCAAGAACAGGCAAAAGGCCUGCUGCGAACUGGUCUCCCGACUCAUCCGGGAAAUCC
(((((((..........(((((.((((((..(((........)))..)))))))))))(..((.......((((.....))))))..).))))))).(((((.......)))))..... (-30.21 = -30.97 +   0.76)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:53 2006