Locus 4323

Sequence ID 3R_DroMel_CAF1
Location 11,443,217 – 11,443,313
Length 96
Max. P 0.984998
window7065 window7066

overview

Window 5

Location 11,443,217 – 11,443,313
Length 96
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.67
Mean single sequence MFE -21.92
Consensus MFE -18.88
Energy contribution -18.88
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.59
Structure conservation index 0.86
SVM decision value 0.62
SVM RNA-class probability 0.803360
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11443217 96 + 27905053
CUAAUCCCGGCCUGAAAGUGACAAAGCCAACGCCUUCAGACAAUGAAAUUUGCGAGCCGGGGAAAAUUGAAAU------------------GAAA------AUGAAAAUUCAAGAACUUG
....((((((((((((.(((..........))).))))).(((......)))...)))))))..........(------------------(((.------.......))))........ ( -20.80)
>DroSec_CAF1 183162 102 + 1
CUAAUCCCGGCCUGAAAGUGACAAAGCCAACGCCUUCAGACAAUGAAAUUUGCGAGCCGGGGAAAAUUGAAAU------------------GAAAAUGAAAAUGAAAAUUCAAGAACUUG
....((((((((((((.(((..........))).))))).(((......)))...)))))))....(((((..------------------....((....)).....)))))....... ( -22.00)
>DroSim_CAF1 177748 96 + 1
CUAAUCCCGGCCUGAAAGUGACAAAGCCAACGCCUUCAGACAAUGAAAUUUGCGAGCCGGGGAAAAUUGAAAU------------------GAAA------AUGAAAAUUCAAGAACUUG
....((((((((((((.(((..........))).))))).(((......)))...)))))))..........(------------------(((.------.......))))........ ( -20.80)
>DroEre_CAF1 172578 119 + 1
CUAAUCCCGGCCUGAAAGUGACAAAGCCAACGCCUUCAGACAAUGAAAUUUGCGAGCCGGG-AAAAUUGAAACGAAAACGAAAAUGGAAAUGAAAAUGAAAAUGAAAAUUCAAGAACUUG
....((((((((((((.(((..........))).))))).(((......)))...))))))-)...(((((.((....))...((....)).................)))))....... ( -22.30)
>DroYak_CAF1 176111 107 + 1
CUAAUCCCGGCCUGAAAGUGACAAAGCCAACGCCUUCAGACAAUGAAAUUUGCGAGCCGGG-AAAAUUGAAAUGA------------GGAUGAGAAUGAAAAUGAAAAUUCAAGAACUUG
....((((((((((((.(((..........))).))))).(((......)))...))))))-)............------------((((....((....))....))))......... ( -23.70)
>consensus
CUAAUCCCGGCCUGAAAGUGACAAAGCCAACGCCUUCAGACAAUGAAAUUUGCGAGCCGGGGAAAAUUGAAAU__________________GAAAAUGAAAAUGAAAAUUCAAGAACUUG
.....(((((((((((.(((..........))).))))).(((......)))...))))))........................................................... (-18.88 = -18.88 +   0.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 11,443,217 – 11,443,313
Length 96
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.67
Mean single sequence MFE -24.02
Consensus MFE -22.18
Energy contribution -22.18
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 0.92
SVM decision value 1.99
SVM RNA-class probability 0.984998
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11443217 96 - 27905053
CAAGUUCUUGAAUUUUCAU------UUUC------------------AUUUCAAUUUUCCCCGGCUCGCAAAUUUCAUUGUCUGAAGGCGUUGGCUUUGUCACUUUCAGGCCGGGAUUAG
........((((.......------.)))------------------)...........((((((..((((......))))(((((((...((((...)))))))))))))))))..... ( -23.50)
>DroSec_CAF1 183162 102 - 1
CAAGUUCUUGAAUUUUCAUUUUCAUUUUC------------------AUUUCAAUUUUCCCCGGCUCGCAAAUUUCAUUGUCUGAAGGCGUUGGCUUUGUCACUUUCAGGCCGGGAUUAG
........((((........)))).....------------------............((((((..((((......))))(((((((...((((...)))))))))))))))))..... ( -23.50)
>DroSim_CAF1 177748 96 - 1
CAAGUUCUUGAAUUUUCAU------UUUC------------------AUUUCAAUUUUCCCCGGCUCGCAAAUUUCAUUGUCUGAAGGCGUUGGCUUUGUCACUUUCAGGCCGGGAUUAG
........((((.......------.)))------------------)...........((((((..((((......))))(((((((...((((...)))))))))))))))))..... ( -23.50)
>DroEre_CAF1 172578 119 - 1
CAAGUUCUUGAAUUUUCAUUUUCAUUUUCAUUUCCAUUUUCGUUUUCGUUUCAAUUUU-CCCGGCUCGCAAAUUUCAUUGUCUGAAGGCGUUGGCUUUGUCACUUUCAGGCCGGGAUUAG
........((((........)))).................................(-((((((..((((......))))(((((((...((((...)))))))))))))))))).... ( -24.80)
>DroYak_CAF1 176111 107 - 1
CAAGUUCUUGAAUUUUCAUUUUCAUUCUCAUCC------------UCAUUUCAAUUUU-CCCGGCUCGCAAAUUUCAUUGUCUGAAGGCGUUGGCUUUGUCACUUUCAGGCCGGGAUUAG
........((((........)))).........------------............(-((((((..((((......))))(((((((...((((...)))))))))))))))))).... ( -24.80)
>consensus
CAAGUUCUUGAAUUUUCAUUUUCAUUUUC__________________AUUUCAAUUUUCCCCGGCUCGCAAAUUUCAUUGUCUGAAGGCGUUGGCUUUGUCACUUUCAGGCCGGGAUUAG
...........................................................((((((..((((......))))(((((((...((((...)))))))))))))))))..... (-22.18 = -22.18 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:12 2006