Locus 6357

Sequence ID 2R_DroMel_CAF1
Location 19,936,129 – 19,936,221
Length 92
Max. P 0.797121
window10155 window10156

overview

Window 5

Location 19,936,129 – 19,936,221
Length 92
Sequences 3
Columns 92
Reading direction forward
Mean pairwise identity 80.15
Mean single sequence MFE -28.90
Consensus MFE -23.51
Energy contribution -21.97
Covariance contribution -1.55
Combinations/Pair 1.24
Mean z-score -1.40
Structure conservation index 0.81
SVM decision value 0.34
SVM RNA-class probability 0.693831
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19936129 92 + 20766785
UUUGCCCGGGGGAAAAGCACGUGCUGCUGAGGCGGGAAAACUACAGCCGGAUUCCCCCAACUCCGGAAAAAAUAAUUUUUUAUACCGGGUGU
...(((((((((((.((((.....))))..(((.(........).)))...)))))))......((.(((((....)))))...)))))).. ( -30.10)
>DroSec_CAF1 16439 78 + 1
UUCGCCCGGGGGAAAAGCACGUGCUGCUGCGGCGGGAAAACUACAGCCAGA--------------GGUGGAAUCACCUAUUGUACCGGGUGU
..(((((((.((...(((....))).))(((((.(........).)))..(--------------((((....)))))...)).))))))). ( -28.30)
>DroSim_CAF1 16482 78 + 1
UUCGCCCGGGGGAAAAGCACGUGCUGCUGCGGCGGGAAAACUACAGCCAGA--------------GGUGGAAUCACCUAUUGUACCGGGUGU
..(((((((.((...(((....))).))(((((.(........).)))..(--------------((((....)))))...)).))))))). ( -28.30)
>consensus
UUCGCCCGGGGGAAAAGCACGUGCUGCUGCGGCGGGAAAACUACAGCCAGA______________GGUGGAAUCACCUAUUGUACCGGGUGU
..(((((((.((...(((....))).))..(((.(........).))).................(((((......)))))...))))))). (-23.51 = -21.97 +  -1.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 19,936,129 – 19,936,221
Length 92
Sequences 3
Columns 92
Reading direction reverse
Mean pairwise identity 80.15
Mean single sequence MFE -27.23
Consensus MFE -18.93
Energy contribution -18.93
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.84
Structure conservation index 0.70
SVM decision value 0.60
SVM RNA-class probability 0.797121
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19936129 92 - 20766785
ACACCCGGUAUAAAAAAUUAUUUUUUCCGGAGUUGGGGGAAUCCGGCUGUAGUUUUCCCGCCUCAGCAGCACGUGCUUUUCCCCCGGGCAAA
....((((...(((((....))))).)))).((((((((((....((((..((......))..))))(((....))).))))))).)))... ( -29.70)
>DroSec_CAF1 16439 78 - 1
ACACCCGGUACAAUAGGUGAUUCCACC--------------UCUGGCUGUAGUUUUCCCGCCGCAGCAGCACGUGCUUUUCCCCCGGGCGAA
.(.(((((..((..(((((....))))--------------).))((((..((......))..))))(((....)))......))))).).. ( -26.00)
>DroSim_CAF1 16482 78 - 1
ACACCCGGUACAAUAGGUGAUUCCACC--------------UCUGGCUGUAGUUUUCCCGCCGCAGCAGCACGUGCUUUUCCCCCGGGCGAA
.(.(((((..((..(((((....))))--------------).))((((..((......))..))))(((....)))......))))).).. ( -26.00)
>consensus
ACACCCGGUACAAUAGGUGAUUCCACC______________UCUGGCUGUAGUUUUCCCGCCGCAGCAGCACGUGCUUUUCCCCCGGGCGAA
...(((((.....................................((((..((......))..))))(((....)))......))))).... (-18.93 = -18.93 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:05 2006