Locus 996

Sequence ID 2R_DroMel_CAF1
Location 4,178,129 – 4,178,227
Length 98
Max. P 0.815211
window1765 window1766

overview

Window 5

Location 4,178,129 – 4,178,227
Length 98
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 95.24
Mean single sequence MFE -34.12
Consensus MFE -32.11
Energy contribution -31.80
Covariance contribution -0.31
Combinations/Pair 1.10
Mean z-score -1.69
Structure conservation index 0.94
SVM decision value 0.66
SVM RNA-class probability 0.815211
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4178129 98 + 20766785
UAGAAAAGUGUUUUUCGAGUGGCGUGAUAAACACACCGACACUCACACACGUACGACGCUUCCCAGCCUGCGUCUGUGUGAGUGCUCUUGUGCGCUAG
......(((((....((((.((.(((.....))).))(.((((((((((.....(((((..........)))))))))))))))).)))).))))).. ( -34.50)
>DroSec_CAF1 5460 97 + 1
UAGAAAAGUGUUUUU-GAGUGGCGUGAUAAACACACCGACACACACACACGUACGACGCUGCCCAGCCUGCGUCUGUGUGAGUGCUCUUGUGCGCUAG
......(((((....-((((((.(((.....))).)).((.((((((.(((((....(((....))).))))).)))))).))))))....))))).. ( -32.00)
>DroEre_CAF1 5692 98 + 1
UAGAGAAGUGUUUUUCGAGUGGCGUGAUAAACACACCGACACUCGCACACGUGCGACGCUGCCCAGCCUGCGUCUGUGUGAGUGCUCUUGUGCGCUAG
......(((((....((((.((.(((.....))).))(.((((((((((..((((..(((....))).))))..))))))))))).)))).))))).. ( -36.00)
>DroYak_CAF1 5528 98 + 1
UAGAAAAGUGUUUUUCGAGUGGCGUGAUAAACACACCGACACUCACACACGUGCGAUGUUGCUCAGCCUGCGUCUGUGUGAGUGCUCUUGUGCGCUAG
......(((((....((((.((.(((.....))).))(.((((((((((..((((..(((....))).))))..))))))))))).)))).))))).. ( -34.00)
>consensus
UAGAAAAGUGUUUUUCGAGUGGCGUGAUAAACACACCGACACUCACACACGUACGACGCUGCCCAGCCUGCGUCUGUGUGAGUGCUCUUGUGCGCUAG
......(((((.....((((((.(((.....))).))).((((((((((.....(((((..........))))))))))))))))))....))))).. (-32.11 = -31.80 +  -0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 4,178,129 – 4,178,227
Length 98
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 95.24
Mean single sequence MFE -32.60
Consensus MFE -27.92
Energy contribution -28.43
Covariance contribution 0.50
Combinations/Pair 1.04
Mean z-score -1.77
Structure conservation index 0.86
SVM decision value 0.26
SVM RNA-class probability 0.658423
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4178129 98 - 20766785
CUAGCGCACAAGAGCACUCACACAGACGCAGGCUGGGAAGCGUCGUACGUGUGUGAGUGUCGGUGUGUUUAUCACGCCACUCGAAAAACACUUUUCUA
...........(((((((((((((.(((.(.(((....))).))))...))))))))))..((((((.....)))))).)))(((((....))))).. ( -36.40)
>DroSec_CAF1 5460 97 - 1
CUAGCGCACAAGAGCACUCACACAGACGCAGGCUGGGCAGCGUCGUACGUGUGUGUGUGUCGGUGUGUUUAUCACGCCACUC-AAAAACACUUUUCUA
..........(((((((.(((((.(((((..((...)).)))))....))))).))))...((((((.....))))))....-...........))). ( -30.80)
>DroEre_CAF1 5692 98 - 1
CUAGCGCACAAGAGCACUCACACAGACGCAGGCUGGGCAGCGUCGCACGUGUGCGAGUGUCGGUGUGUUUAUCACGCCACUCGAAAAACACUUCUCUA
...((((((..((....)).....(((((..((...)).)))))....))))))((((...((((((.....))))))))))................ ( -31.60)
>DroYak_CAF1 5528 98 - 1
CUAGCGCACAAGAGCACUCACACAGACGCAGGCUGAGCAACAUCGCACGUGUGUGAGUGUCGGUGUGUUUAUCACGCCACUCGAAAAACACUUUUCUA
...........((((((((((((..(((...((.((......)))).))))))))))))..((((((.....)))))).)))(((((....))))).. ( -31.60)
>consensus
CUAGCGCACAAGAGCACUCACACAGACGCAGGCUGGGCAGCGUCGCACGUGUGUGAGUGUCGGUGUGUUUAUCACGCCACUCGAAAAACACUUUUCUA
..........((((((((((((((...(((.(((....))).).))...))))))))))).((((((.....))))))................))). (-27.92 = -28.43 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:40 2006