Locus 3005

Sequence ID X_DroMel_CAF1
Location 8,007,689 – 8,007,793
Length 104
Max. P 0.671150
window4924

overview

Window 4

Location 8,007,689 – 8,007,793
Length 104
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 76.90
Mean single sequence MFE -43.67
Consensus MFE -24.27
Energy contribution -26.05
Covariance contribution 1.78
Combinations/Pair 1.28
Mean z-score -1.70
Structure conservation index 0.56
SVM decision value 0.29
SVM RNA-class probability 0.671150
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8007689 104 - 22224390
---AUCCG-GCAAUGUCGUGGAUGACAGAAUGUGCUGGAUUUGCCUGAGGGGCGAUGAGGAUCACCGCCGAAGGGAUUGGGUGCAUCCGUGUCGCUGUCGCGGCACCA
---(((((-(((.(((((....))))).....))))))))(((((.....)))))...((((((((.((....))....)))).))))(((((((....))))))).. ( -46.40)
>DroVir_CAF1 6008 105 - 1
---ACCAGGACAGUGCCCAUGAUGAGCGCAUGUGUUGGAUCUGCUUGAACACAGAUGAGGAAAGCCUGCGGCACGACUGGCUGCAACCGUGCCGCUGUCGUGGCACCA
---.........(((((.(((((.(((((.((((((.((.....)).))))))....(((....)))))((((((..((....))..))))))))))))))))))).. ( -39.30)
>DroSim_CAF1 6249 104 - 1
---AUCCG-GCAAUACCGCGGAUGACAGGAUGUGCUGGAUUUGCCUGAGGGGCGAUGAGGAUCACCGCCGACGGGAUUGGGUGCAUCCGUGUCGCUGUCGCGGCACCA
---(((((-.(......))))))....(((((..((.(((...((((...((((.((.....)).))))..))))))).))..)))))(((((((....))))))).. ( -44.10)
>DroEre_CAF1 6564 104 - 1
---UUCCG-GAAAUCCCGAGGAGGACAGGAUGUGCUGGAUUUGUCUCACCGGCGAUGAGGAUCAACGUCGCCGGGAUUGGGUGCACCCGUGUCGCUGUCGCGGCACCA
---.....-..((((((((.(((..(((......)))..))).)).....(((((((........)))))))))))))(((....)))(((((((....))))))).. ( -43.80)
>DroYak_CAF1 6643 107 - 1
GCCAACUG-AAAAUGCGGAGGAUGACAGGAUGUGCUGGAUUUGCCUGACGGGCGAUGAGGAUCAACGUCGCCGGGAUUGGGUGCAUCCGUGUCGCUGUCGCGGCACCA
(((...(.-...).(((..((.((((((((((..((.((((.......(.(((((((........))))))).))))).))..))))).)))))))..)))))).... ( -44.01)
>DroAna_CAF1 7344 96 - 1
---------ACAG---CAUCGACGACAGGAUGUGCUGGAUCUGCCUGACCGGCGACGAGGACCAGCCGCGACGCGACUGGUUGCAUCCUUGUCGCUGUCGCGGCACCA
---------.(((---(((...(....)...))))))....((((((((.(((((((((((((((.(((...))).)))).....))))))))))))))).))))... ( -44.40)
>consensus
___AUCCG_ACAAUGCCGAGGAUGACAGGAUGUGCUGGAUUUGCCUGACCGGCGAUGAGGAUCACCGCCGACGGGAUUGGGUGCAUCCGUGUCGCUGUCGCGGCACCA
...........................(((((((((.(((...((((...((((.((.....)).))))..))))))).)))))))))(((((((....))))))).. (-24.27 = -26.05 +   1.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:47 2006