Locus 8617

Sequence ID X_DroMel_CAF1
Location 21,439,246 – 21,439,366
Length 120
Max. P 0.987023
window14166 window14167

overview

Window 6

Location 21,439,246 – 21,439,366
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 61.82
Mean single sequence MFE -41.23
Consensus MFE -19.20
Energy contribution -19.53
Covariance contribution 0.34
Combinations/Pair 1.11
Mean z-score -1.74
Structure conservation index 0.47
SVM decision value 0.49
SVM RNA-class probability 0.755762
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21439246 120 + 22224390
UGGCCAGUUGAACGGGGGCAGGAGCCCCUGGCGACUGAACAGCCAAAAAUGCGUCCUGUGGCGAUUGAACAGCCACCGGGGAGGCCGAUGUCGGAUAUAAAGCCACCGGAGAAGACUGCU
((((((((((..(((((((....))))))).))))))....)))).....(((((...((((.........))))((((((...(((....)))........)).))))....))).)). ( -47.30)
>DroSim_CAF1 6763 90 + 1
UCGGCACUUGAACGGGGACAGGAGUCGAUGGCUGCUGAACAGCCACCGGAGUGGCCGGUGUCGGAUAUGAAGCCACCGG------------------------------AGGAGACUGCU
..(((.......(((((.((....((((((((((.....)))))(((((.....))))))))))...))...)).))).------------------------------((....))))) ( -32.80)
>DroYak_CAF1 13060 90 + 1
UCGCCACUUGAACGGGGACAGGAGCCGGUGGCGACUGAACAGCCACCGGGGCAGCCGGUGCCUGAAAUUCAGCCACCGG------------------------------AAGAGCCUCCU
((.((........)).)).((((.((((((((.........))))))))(((..((((((.(((.....))).))))))------------------------------....))))))) ( -43.60)
>consensus
UCGCCACUUGAACGGGGACAGGAGCCGAUGGCGACUGAACAGCCACCGGAGCGGCCGGUGCCGGAUAUACAGCCACCGG______________________________AGGAGACUGCU
............(((((.(((..(((...)))..)))....(.((((((.....)))))).)..........)).))).......................................... (-19.20 = -19.53 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 21,439,246 – 21,439,366
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 61.82
Mean single sequence MFE -38.87
Consensus MFE -20.75
Energy contribution -20.20
Covariance contribution -0.55
Combinations/Pair 1.32
Mean z-score -1.79
Structure conservation index 0.53
SVM decision value 2.06
SVM RNA-class probability 0.987023
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21439246 120 - 22224390
AGCAGUCUUCUCCGGUGGCUUUAUAUCCGACAUCGGCCUCCCCGGUGGCUGUUCAAUCGCCACAGGACGCAUUUUUGGCUGUUCAGUCGCCAGGGGCUCCUGCCCCCGUUCAACUGGCCA
..((((.......(((((((..(((.((((.....((.(((...(((((.........))))).))).))....)))).)))..))))))).(((((....)))))......)))).... ( -44.50)
>DroSim_CAF1 6763 90 - 1
AGCAGUCUCCU------------------------------CCGGUGGCUUCAUAUCCGACACCGGCCACUCCGGUGGCUGUUCAGCAGCCAUCGACUCCUGUCCCCGUUCAAGUGCCGA
.(.((((.((.------------------------------..)).)))).)...........((((.(((..((((((((.....))))))))(((....)))........))))))). ( -29.80)
>DroYak_CAF1 13060 90 - 1
AGGAGGCUCUU------------------------------CCGGUGGCUGAAUUUCAGGCACCGGCUGCCCCGGUGGCUGUUCAGUCGCCACCGGCUCCUGUCCCCGUUCAAGUGGCGA
(((((((....------------------------------((((((.(((.....))).))))))..)))((((((((.........)))))))).)))).((.(((......))).)) ( -42.30)
>consensus
AGCAGUCUCCU______________________________CCGGUGGCUGAAUAUCCGACACCGGCCGCACCGGUGGCUGUUCAGUCGCCACCGGCUCCUGUCCCCGUUCAAGUGGCGA
.((((....................................((((((.(.........).)))))).....((((((((.........))))))))...))))................. (-20.75 = -20.20 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:39 2006