Locus 6315

Sequence ID 3R_DroMel_CAF1
Location 16,499,460 – 16,499,553
Length 93
Max. P 0.740503
window10301 window10302

overview

Window 1

Location 16,499,460 – 16,499,553
Length 93
Sequences 4
Columns 93
Reading direction forward
Mean pairwise identity 89.43
Mean single sequence MFE -30.65
Consensus MFE -23.73
Energy contribution -24.10
Covariance contribution 0.37
Combinations/Pair 1.09
Mean z-score -1.44
Structure conservation index 0.77
SVM decision value -0.01
SVM RNA-class probability 0.530786
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16499460 93 + 27905053
CUCCAACAAAUGGUCGACGGGCGGUGGUCUCUUGGUCCCACAUUGGGCGCCAUAAAUCCAAGUGCAACCUUAUGGCCCAACCGCCGACCUUGA
......(((..((((....((((((((((....(((..(((.(((((.........))))))))..)))....))))..))))))))))))). ( -31.50)
>DroSec_CAF1 55805 93 + 1
CUCCAACAAAUGGUCGACGAGCGAUGGUCCCUUGGCCCCACGUUGGGCGCCAUAAAUCCAAGUGCAACCUUUCGGCCCAACAGCCGACCUUGA
......(((..((((.....(((.(((.....(((((((.....))).)))).....)))..)))........(((......)))))))))). ( -29.20)
>DroSim_CAF1 59725 93 + 1
CUCCAACAAAUGGUCGACGAGCGGUGGUCCCUUGGCCCCACGUUGGGCGCCAUAAAUCCAAGUGCAACCUUUCGGCCCAACCGCCGACCUUGA
......(((..(((((....(((((((.((..(((((((.....))).)))).......(((......)))..)).)).))))))))))))). ( -30.20)
>DroEre_CAF1 57141 93 + 1
CUCCAGCAAAUGGGCAAGGAGUGUUGGCCUCCUGGCCCCACGUUGGGCGCCAUAAAUCCAAGUGCAACCUUUCGGCCCAAUGGGCAACCUUGA
.....(((..((((..(((((.(....))))))((((((.....))).))).....))))..))).........((((...))))........ ( -31.70)
>consensus
CUCCAACAAAUGGUCGACGAGCGGUGGUCCCUUGGCCCCACGUUGGGCGCCAUAAAUCCAAGUGCAACCUUUCGGCCCAACCGCCGACCUUGA
......(((..((((.....(((.(((.....(((((((.....))).)))).....)))..)))........(((......)))))))))). (-23.73 = -24.10 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 16,499,460 – 16,499,553
Length 93
Sequences 4
Columns 93
Reading direction reverse
Mean pairwise identity 89.43
Mean single sequence MFE -36.80
Consensus MFE -31.96
Energy contribution -32.40
Covariance contribution 0.44
Combinations/Pair 1.25
Mean z-score -1.57
Structure conservation index 0.87
SVM decision value 0.45
SVM RNA-class probability 0.740503
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16499460 93 - 27905053
UCAAGGUCGGCGGUUGGGCCAUAAGGUUGCACUUGGAUUUAUGGCGCCCAAUGUGGGACCAAGAGACCACCGCCCGUCGACCAUUUGUUGGAG
....(((((((((.((((((....)))......(((.(((.(((..(((.....))).))).))).)))))).)))))))))........... ( -35.70)
>DroSec_CAF1 55805 93 - 1
UCAAGGUCGGCUGUUGGGCCGAAAGGUUGCACUUGGAUUUAUGGCGCCCAACGUGGGGCCAAGGGACCAUCGCUCGUCGACCAUUUGUUGGAG
....(((((((.....((((....))))((...(((.((..((((.(((.....)))))))..)).)))..))..)))))))........... ( -36.80)
>DroSim_CAF1 59725 93 - 1
UCAAGGUCGGCGGUUGGGCCGAAAGGUUGCACUUGGAUUUAUGGCGCCCAACGUGGGGCCAAGGGACCACCGCUCGUCGACCAUUUGUUGGAG
....((((((((..((((((....)))......(((.((..((((.(((.....)))))))..)).))))))..))))))))........... ( -40.90)
>DroEre_CAF1 57141 93 - 1
UCAAGGUUGCCCAUUGGGCCGAAAGGUUGCACUUGGAUUUAUGGCGCCCAACGUGGGGCCAGGAGGCCAACACUCCUUGCCCAUUUGCUGGAG
..........(((...((((....))))(((..(((.....((((.(((.....)))))))((((.......))))....)))..)))))).. ( -33.80)
>consensus
UCAAGGUCGGCGGUUGGGCCGAAAGGUUGCACUUGGAUUUAUGGCGCCCAACGUGGGGCCAAGAGACCACCGCUCGUCGACCAUUUGUUGGAG
....(((((((((.((((((....)))......(((.(((.((((.(((.....))))))).))).)))))).)))))))))........... (-31.96 = -32.40 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:30 2006