Locus 3136

Sequence ID 3L_DroMel_CAF1
Location 9,131,506 – 9,131,614
Length 108
Max. P 0.976067
window4894 window4895

overview

Window 4

Location 9,131,506 – 9,131,614
Length 108
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 91.02
Mean single sequence MFE -35.23
Consensus MFE -31.59
Energy contribution -31.70
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.61
Structure conservation index 0.90
SVM decision value 1.35
SVM RNA-class probability 0.945424
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9131506 108 + 23771897
GUAUCGCAGAGCAACCCUGCUUGAAGCACUAGCGUUCAUGAUUGAUUCAAUCAUUGAGUGCUUGAAGCCGGGUUCGAUUCCACCGAUAGUUAGCCCAAGAUAUUUGGC
.(((((..(((((((((.((((.(((((((.......(((((((...)))))))..))))))).)))).))))).).)))...)))))....(((.((....)).))) ( -35.30)
>DroSec_CAF1 6517 107 + 1
GUAUCGCGGAGCAACCCUGCUUGAAGCACUAAC-UUCAUGAUUGAUUCAAUCAUUGAGUGCUUGAAGCCGGGUUCGAUUACACCGAUAGUUAGCCCAAGAUAUUUGGC
(((((..((.((.((((.((((.(((((((...-...(((((((...)))))))..))))))).)))).))))(((.......)))......))))..)))))..... ( -36.70)
>DroEre_CAF1 6605 107 + 1
UUAUCGCAGAGCAACCCUGCUUGAAGCACUAUC-CGUAUGAUUGAUUCAAUCAUUGUGUGCUUGAAGCUGGGUUCAAUUCCAACGAUAGUUAGCCCAGGAUGUUUGGC
.....((.(((((.((..((((.((((((....-((.(((((((...))))))))).)))))).))))((((((.((((........)))))))))))).))))).)) ( -33.70)
>consensus
GUAUCGCAGAGCAACCCUGCUUGAAGCACUAAC_UUCAUGAUUGAUUCAAUCAUUGAGUGCUUGAAGCCGGGUUCGAUUCCACCGAUAGUUAGCCCAAGAUAUUUGGC
.(((((..((..(((((.((((.(((((((.......(((((((...)))))))..))))))).)))).)))))...))....)))))....(((.((....)).))) (-31.59 = -31.70 +   0.11)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 9,131,506 – 9,131,614
Length 108
Sequences 3
Columns 108
Reading direction reverse
Mean pairwise identity 91.02
Mean single sequence MFE -33.90
Consensus MFE -31.55
Energy contribution -32.00
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -2.68
Structure conservation index 0.93
SVM decision value 1.76
SVM RNA-class probability 0.976067
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9131506 108 - 23771897
GCCAAAUAUCUUGGGCUAACUAUCGGUGGAAUCGAACCCGGCUUCAAGCACUCAAUGAUUGAAUCAAUCAUGAACGCUAGUGCUUCAAGCAGGGUUGCUCUGCGAUAC
(((..........)))....((((.(..((....(((((.((((.(((((((..(((((((...))))))).......))))))).)))).)))))..))..))))). ( -34.30)
>DroSec_CAF1 6517 107 - 1
GCCAAAUAUCUUGGGCUAACUAUCGGUGUAAUCGAACCCGGCUUCAAGCACUCAAUGAUUGAAUCAAUCAUGAA-GUUAGUGCUUCAAGCAGGGUUGCUCCGCGAUAC
......((((.(((((......(((((...)))))((((.((((.(((((((..(((((((...)))))))...-...))))))).)))).)))).)).))).)))). ( -35.50)
>DroEre_CAF1 6605 107 - 1
GCCAAACAUCCUGGGCUAACUAUCGUUGGAAUUGAACCCAGCUUCAAGCACACAAUGAUUGAAUCAAUCAUACG-GAUAGUGCUUCAAGCAGGGUUGCUCUGCGAUAA
(((..........)))....((((((.(((....(((((.((((.((((((.(.(((((((...)))))))...-)...)))))).)))).)))))..))))))))). ( -31.90)
>consensus
GCCAAAUAUCUUGGGCUAACUAUCGGUGGAAUCGAACCCGGCUUCAAGCACUCAAUGAUUGAAUCAAUCAUGAA_GAUAGUGCUUCAAGCAGGGUUGCUCUGCGAUAC
(((..........)))....(((((.((((....(((((.((((.(((((((..(((((((...))))))).......))))))).)))).)))))..))))))))). (-31.55 = -32.00 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:30 2006