Locus 949

Sequence ID 3L_DroMel_CAF1
Location 2,840,114 – 2,840,205
Length 91
Max. P 0.977938
window1459 window1460

overview

Window 9

Location 2,840,114 – 2,840,205
Length 91
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 91.75
Mean single sequence MFE -29.82
Consensus MFE -26.41
Energy contribution -26.01
Covariance contribution -0.40
Combinations/Pair 1.10
Mean z-score -1.75
Structure conservation index 0.89
SVM decision value 1.80
SVM RNA-class probability 0.977938
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2840114 91 + 23771897
GGUUGGGACUGCAGAUGCGUGCUAAUGAAAGUGCAUUAGCCCUGGGACCUGGACU---------------UGGUGGCAGGACUAACCAAGGAUAAUGGACUGUGGA
((((((..((((......(.(((((((......))))))).)....(((......---------------.))).))))..))))))................... ( -28.50)
>DroSec_CAF1 85050 91 + 1
GGUUGGGACUGCAGAUGCGUGCUAAUGAAAGUGCAUUAGCCCUGGGACCUGGACU---------------UGGUGGCAGGACUAACCAAGGAUAAUGGACUGUGGA
((((((..((((......(.(((((((......))))))).)....(((......---------------.))).))))..))))))................... ( -28.50)
>DroSim_CAF1 75739 91 + 1
GGUUGGGACUGCAGAUGCGUGCUAAUGAAAGUGCAUUAGCCCUGGGACCUGGACU---------------UGGUGGCAGGACUAACCAAGGAUAAUGGACUGUGGA
((((((..((((......(.(((((((......))))))).)....(((......---------------.))).))))..))))))................... ( -28.50)
>DroEre_CAF1 88232 91 + 1
GGUUGGGAUUGCAGAUGCGUGCUAAUGAAAGUGCAUUAGCAGUGGGACCUGGACU---------------UGGUGGCAGGACUAGCCAAGGAUAAUGGACUGUGGA
((((((..((((....((.((((((((......))))))))))...(((......---------------.))).))))..))))))................... ( -27.80)
>DroYak_CAF1 89251 106 + 1
GGUUGGGAUUGCAGAUGCGUGCUAAUGAAAGUGCAUUAGCACUGGGACCUGGACUUUGGUGGCAGCACUUUGGUGGCAGGACUAACCAAGGAUAAUGGACUGUGGA
((((((..((((...((((((((((((......)))))))))....(((........))).))).(((....)))))))..))))))................... ( -35.80)
>consensus
GGUUGGGACUGCAGAUGCGUGCUAAUGAAAGUGCAUUAGCCCUGGGACCUGGACU_______________UGGUGGCAGGACUAACCAAGGAUAAUGGACUGUGGA
((((((..((((........(((((((......)))))))......(((......................))).))))..))))))................... (-26.41 = -26.01 +  -0.40)

alignment

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secondary structure

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dotplot

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Window 0

Location 2,840,114 – 2,840,205
Length 91
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 91.75
Mean single sequence MFE -20.12
Consensus MFE -16.33
Energy contribution -16.93
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.85
Structure conservation index 0.81
SVM decision value 1.13
SVM RNA-class probability 0.919726
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2840114 91 - 23771897
UCCACAGUCCAUUAUCCUUGGUUAGUCCUGCCACCA---------------AGUCCAGGUCCCAGGGCUAAUGCACUUUCAUUAGCACGCAUCUGCAGUCCCAACC
.....(((.(((((.((((((...(.((((......---------------....)))).))))))).))))).))).......(((......))).......... ( -20.20)
>DroSec_CAF1 85050 91 - 1
UCCACAGUCCAUUAUCCUUGGUUAGUCCUGCCACCA---------------AGUCCAGGUCCCAGGGCUAAUGCACUUUCAUUAGCACGCAUCUGCAGUCCCAACC
.....(((.(((((.((((((...(.((((......---------------....)))).))))))).))))).))).......(((......))).......... ( -20.20)
>DroSim_CAF1 75739 91 - 1
UCCACAGUCCAUUAUCCUUGGUUAGUCCUGCCACCA---------------AGUCCAGGUCCCAGGGCUAAUGCACUUUCAUUAGCACGCAUCUGCAGUCCCAACC
.....(((.(((((.((((((...(.((((......---------------....)))).))))))).))))).))).......(((......))).......... ( -20.20)
>DroEre_CAF1 88232 91 - 1
UCCACAGUCCAUUAUCCUUGGCUAGUCCUGCCACCA---------------AGUCCAGGUCCCACUGCUAAUGCACUUUCAUUAGCACGCAUCUGCAAUCCCAACC
..................((((.......))))...---------------....(((((.(...((((((((......)))))))).).)))))........... ( -16.50)
>DroYak_CAF1 89251 106 - 1
UCCACAGUCCAUUAUCCUUGGUUAGUCCUGCCACCAAAGUGCUGCCACCAAAGUCCAGGUCCCAGUGCUAAUGCACUUUCAUUAGCACGCAUCUGCAAUCCCAACC
.................((((((((..((........))..)))..)))))....(((((....(((((((((......)))))))))..)))))........... ( -23.50)
>consensus
UCCACAGUCCAUUAUCCUUGGUUAGUCCUGCCACCA_______________AGUCCAGGUCCCAGGGCUAAUGCACUUUCAUUAGCACGCAUCUGCAGUCCCAACC
.....(((.(((((.((((((...(.((((.........................)))).))))))).))))).))).......(((......))).......... (-16.33 = -16.93 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:09 2006