Locus 866

Sequence ID 3L_DroMel_CAF1
Location 2,607,906 – 2,608,065
Length 159
Max. P 0.723772
window1330 window1331

overview

Window 0

Location 2,607,906 – 2,608,026
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 89.36
Mean single sequence MFE -26.05
Consensus MFE -17.84
Energy contribution -18.15
Covariance contribution 0.31
Combinations/Pair 1.19
Mean z-score -2.05
Structure conservation index 0.68
SVM decision value 0.19
SVM RNA-class probability 0.628336
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2607906 120 - 23771897
AGAAAUUCUGUGUAUUUUGCACAUUAUUUCUAUACAUUUUAUGCAGUUUCUGCAUGAGUUAUGACCAGCUUAUUGAGUACUGUAUAAUUUGAAAGUAUAUGUUUCAUUAAGACCAUAUUU
((((((..(((((.....)))))..))))))...((..((((((((((((...(((((((......))))))).))).)))))))))..)).((((((..((((.....)))).)))))) ( -28.20)
>DroSec_CAF1 6325 118 - 1
AGAAACUCUGUGUU-UUUGCAAAUUAUUUCUGUGCAUGUUAUGCAGUUCCUA-AUGAGUUAUGGCCAGCUUAUUGAGUACUGUAUAAUUUGAAAGUAUAUGUUUCAUUAAGACCAUAUUU
.(((((..((((((-((((((...........)))..((((((((((.(.((-(((((((......))))))))).).))))))))))..))))))))).)))))............... ( -25.90)
>DroSim_CAF1 8817 118 - 1
AGAAACUCUGUGUA-UUUGCACAUUAUUUCUGUACAUUUUAUGCAGUUUCUA-AUGAGUUAUGGCCAGCUUAUUGAGUACUGUACAAUUUGAAAGUAUAUGUUUCAUUAAGACCAUAUUU
.(((((..(((((.-...))))).......(((((.((((((((((((((.(-(((((((......))))))))))).)))))).....)))))))))).)))))............... ( -25.50)
>DroEre_CAF1 6387 118 - 1
ACAAUCUCUGUGUA-UUUGCAAAUUAUUUCUAUAUAUUUUAUGCAGUUUCUA-AUGAGUUAUGGGCAGCUUAUUGUCUGCUGCAGAAUUUUAAAGUAUAUGUUUCAUUUAGACCACAGUU
.......(((((..-................((((((((((((((((...((-(((((((......)))))))))...))))))......))))))))))((((.....))))))))).. ( -24.60)
>consensus
AGAAACUCUGUGUA_UUUGCAAAUUAUUUCUAUACAUUUUAUGCAGUUUCUA_AUGAGUUAUGGCCAGCUUAUUGAGUACUGUAUAAUUUGAAAGUAUAUGUUUCAUUAAGACCAUAUUU
.(((((..(((((.....))))).......(((((...(((((((((......(((((((......))))))).....))))))))).......))))).)))))............... (-17.84 = -18.15 +   0.31)

alignment

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secondary structure

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dotplot

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Window 1

Location 2,607,946 – 2,608,065
Length 119
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 86.64
Mean single sequence MFE -22.18
Consensus MFE -14.79
Energy contribution -15.98
Covariance contribution 1.19
Combinations/Pair 1.12
Mean z-score -2.03
Structure conservation index 0.67
SVM decision value 0.41
SVM RNA-class probability 0.723772
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2607946 119 + 23771897
GUACUCAAUAAGCUGGUCAUAACUCAUGCAGAAACUGCAUAAAAUGUAUAGAAAUAAUGUGCAAAAUACACAGAAUUUCUGAG-AAACGGCAAAAGCACUAUGGUUAUUAAUAAUAAAUC
...........(((.(((....(((((((((...)))))).........((((((..((((.......))))..)))))))))-....)))...)))....................... ( -23.00)
>DroSec_CAF1 6365 117 + 1
GUACUCAAUAAGCUGGCCAUAACUCAU-UAGGAACUGCAUAACAUGCACAGAAAUAAUUUGCAAA-AACACAGAGUUUCUGAG-AAAUGGCCAAAGCACUCAGGUUAUUAAUAAUAAAUC
...........(((((((((...((.(-((((((((((((...)))).((((.....))))....-.......))))))))))-).))))))..)))....................... ( -24.00)
>DroSim_CAF1 8857 117 + 1
GUACUCAAUAAGCUGGCCAUAACUCAU-UAGAAACUGCAUAAAAUGUACAGAAAUAAUGUGCAAA-UACACAGAGUUUCUGAG-AAAUGGCAAAAGCACUCAGGUUAUUAAUAAUAAAUC
...........(((.(((((...((.(-((((((((........((((((.......))))))..-.......))))))))))-).)))))...)))....................... ( -25.73)
>DroEre_CAF1 6427 118 + 1
GCAGACAAUAAGCUGCCCAUAACUCAU-UAGAAACUGCAUAAAAUAUAUAGAAAUAAUUUGCAAA-UACACAGAGAUUGUGAGGAAAUGGUGAAAGCCUACUAGUUAAUAAUAAUCAAUC
..........(((((((((((((((..-.......((((....................))))..-......))).))))).))....(((....)))...))))).............. ( -15.98)
>consensus
GUACUCAAUAAGCUGGCCAUAACUCAU_UAGAAACUGCAUAAAAUGUACAGAAAUAAUGUGCAAA_UACACAGAGUUUCUGAG_AAAUGGCAAAAGCACUCAGGUUAUUAAUAAUAAAUC
...........(((.(((((..(((..........(((((...))))).((((((..((((.......))))..)))))))))...)))))...)))....................... (-14.79 = -15.98 +   1.19)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:06 2006