Locus 3

Sequence ID 3R_DroMel_CAF1
Location 63,593 – 63,692
Length 99
Max. P 0.995898
window4 window5

overview

Window 4

Location 63,593 – 63,692
Length 99
Sequences 3
Columns 99
Reading direction forward
Mean pairwise identity 76.06
Mean single sequence MFE -24.07
Consensus MFE -15.16
Energy contribution -15.16
Covariance contribution 0.01
Combinations/Pair 1.16
Mean z-score -1.67
Structure conservation index 0.63
SVM decision value 0.52
SVM RNA-class probability 0.766530
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 63593 99 + 27905053
AAAUAAGCGUAAGUAAGGAGCAGAUCGCGCUGACAUCGAUGGGAUAGGUGCGGUGCUUAUGCAGUGGCACCCAGAAGGCUGGGAGAGAAGGGUACGAAG
......((((((((.........((((((((...(((.....))).)))))))))))))))).(((.(.(((((....))))).......).))).... ( -28.70)
>DroSec_CAF1 4994 81 + 1
ACAUAAGCGUAAGUAAGCAAAUAAGUGUGCUGACAUCGCUGGAAU-------------AUGCAGUGGCGCCCAGAAGUC-----GUAAAGGGCACGAAG
......((((.((((.((......)).)))).))..(((((....-------------...)))))))((((.......-----.....))))...... ( -19.20)
>DroSim_CAF1 8831 86 + 1
ACAUAAGCGUAAGUAAGCAAAUAAGUGUGCUGACAUCGCUGGGAU-------------AUGCAGUGGCGCCCAGAAGGCUGGGAGUAAAGGGCACGAAG
......((........))......((((.((.....(((((....-------------...)))))((.(((((....))))).))..)).)))).... ( -24.30)
>consensus
ACAUAAGCGUAAGUAAGCAAAUAAGUGUGCUGACAUCGCUGGGAU_____________AUGCAGUGGCGCCCAGAAGGCUGGGAGUAAAGGGCACGAAG
......((((.((((.((......)).)))).))..(((((.(.(((((.....)))))).)))))))((((.................))))...... (-15.16 = -15.16 +   0.01) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 63,593 – 63,692
Length 99
Sequences 3
Columns 99
Reading direction reverse
Mean pairwise identity 76.06
Mean single sequence MFE -19.92
Consensus MFE -14.63
Energy contribution -14.63
Covariance contribution 0.00
Combinations/Pair 1.12
Mean z-score -2.18
Structure conservation index 0.73
SVM decision value 2.63
SVM RNA-class probability 0.995898
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 63593 99 - 27905053
CUUCGUACCCUUCUCUCCCAGCCUUCUGGGUGCCACUGCAUAAGCACCGCACCUAUCCCAUCGAUGUCAGCGCGAUCUGCUCCUUACUUACGCUUAUUU
....((((((.................))))))......((((((...((...((((.....))))...))((.....))...........)))))).. ( -17.33)
>DroSec_CAF1 4994 81 - 1
CUUCGUGCCCUUUAC-----GACUUCUGGGCGCCACUGCAU-------------AUUCCAGCGAUGUCAGCACACUUAUUUGCUUACUUACGCUUAUGU
....((((((.....-----.......))))))....((((-------------(....((((..((.((((........)))).))...))))))))) ( -21.40)
>DroSim_CAF1 8831 86 - 1
CUUCGUGCCCUUUACUCCCAGCCUUCUGGGCGCCACUGCAU-------------AUCCCAGCGAUGUCAGCACACUUAUUUGCUUACUUACGCUUAUGU
....((((((.................))))))....((((-------------(....((((..((.((((........)))).))...))))))))) ( -21.03)
>consensus
CUUCGUGCCCUUUACUCCCAGCCUUCUGGGCGCCACUGCAU_____________AUCCCAGCGAUGUCAGCACACUUAUUUGCUUACUUACGCUUAUGU
....((((((.................))))))..........................((((..((.((((........)))).))...))))..... (-14.63 = -14.63 +   0.00) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:29:49 2006