Locus 3292

Sequence ID 2R_DroMel_CAF1
Location 11,231,393 – 11,231,492
Length 99
Max. P 0.518293
window5389

overview

Window 9

Location 11,231,393 – 11,231,492
Length 99
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 77.21
Mean single sequence MFE -32.22
Consensus MFE -15.55
Energy contribution -17.80
Covariance contribution 2.25
Combinations/Pair 1.08
Mean z-score -1.87
Structure conservation index 0.48
SVM decision value -0.03
SVM RNA-class probability 0.518293
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11231393 99 + 20766785
UUCCGACAAUCCCCUGGACCCGGAGUCCGGGGUAUUGAUGCCAC-----UUCACAUCGACUUGUCAGGAACAGCCGCUGGCAAGUUUU-UGAUGUGUCAGCCGGA
.((((.((((.((((((((.....)))))))).))))..((...-----..(((((((((((((((((......).))))))))))..-.))))))...)))))) ( -42.80)
>DroSec_CAF1 18360 91 + 1
UUCCGACAAUCCCCUGGACCCG--------GGUAUUGAUGCCAC-----UUCACAUCGACUUGUCAGGAACAGCCGCUGGCAAGUUUU-UGAUGUGUCAGCCGGA
.((((.((((.(((.(....))--------)).))))..((...-----..(((((((((((((((((......).))))))))))..-.))))))...)))))) ( -31.90)
>DroEre_CAF1 18475 98 + 1
UGCCGACAAUCCCCUGGUCCCGGAGCCCG-GGUAUUGAUGCCAC-----UUCACAUCGACUUGUCAGGAACAGCCGCUGGCAAGUUUU-UGAUGUGUCAGCCGGA
..(((.((((.(((.(((......))).)-)).))))..((...-----..(((((((((((((((((......).))))))))))..-.))))))...))))). ( -35.40)
>DroWil_CAF1 39274 78 + 1
CUAGCCAAAUCU--UGC-------------UCUAUUGACGCCAC-----UUCA------CUUGUCAAACACAGCCGUUGGCAAGUUUU-UGAUGUGUCGGCCGGG
(..(((......--.((-------------((....)).))(((-----.(((------((((((((.(......))))))))))...-.)).)))..)))..). ( -19.40)
>DroYak_CAF1 18670 99 + 1
UUCCGACAAUCCCCUGGUCCCGGUGCCCG-GGUAUUGAUGCCAC-----UUCACAUCGACUUGUCAGGAACAGCCGCUGGCAAGUUUUGUGAUGUGUCAGCCGGU
..(((.((((.(((.(((......))).)-)).)))).((.(((-----.(((((..(((((((((((......).)))))))))).))))).))).))..))). ( -37.90)
>DroAna_CAF1 17460 89 + 1
CUGACCCAAUCCCCUGG---------------CAUCGAUGCCACUUCACUUCACAUCGACUUGUCAGGAGCAGCCGCCGGCAAGUUUU-UGAUGUGUCAGCCCUG
(((((.........(((---------------((....))))).........(((((((((((((.((........))))))))))..-.))))))))))..... ( -25.90)
>consensus
UUCCGACAAUCCCCUGG_CCCG________GGUAUUGAUGCCAC_____UUCACAUCGACUUGUCAGGAACAGCCGCUGGCAAGUUUU_UGAUGUGUCAGCCGGA
.............((((.............((((....)))).........((((((((((((((((.........))))))))))....))))))....)))). (-15.55 = -17.80 +   2.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:57 2006