Locus 1018

Sequence ID 3L_DroMel_CAF1
Location 3,012,061 – 3,012,170
Length 109
Max. P 0.999104
window1572

overview

Window 2

Location 3,012,061 – 3,012,170
Length 109
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 77.57
Mean single sequence MFE -30.28
Consensus MFE -15.20
Energy contribution -18.08
Covariance contribution 2.88
Combinations/Pair 1.05
Mean z-score -3.20
Structure conservation index 0.50
SVM decision value 3.37
SVM RNA-class probability 0.999104
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3012061 109 + 23771897
GACAUAACAAAGCCACUCGGGG-GAGUCUGUGAAAGUCAAUGACUUUCUGGGUAAAGUCACGUAUUGGCCAACAAAA-ACAAAAAGCAGACU-UGCAAAA-AGGAACAAAGCU-------
............((......(.-(((((((((((((((...)))))))(((.(((.........))).)))......-.......)))))))-).)....-.)).........------- ( -23.20)
>DroSec_CAF1 46344 107 + 1
GACAUAACAAAGCCACUCGGGG-GAGUCUGUGAAAGUCAAUGACUUUCUGGGCCAAGUCACGUAUUGGCCAAAAAA---AAAAAAGCAGACU-UGCAAAA-AGGAGCAAGGCU-------
..........((((.(((..(.-(((((((((((((((...)))))))..((((((........))))))......---......)))))))-).)....-..)))...))))------- ( -35.40)
>DroSim_CAF1 46968 110 + 1
GACAUAACAAAGCCACUCGGGG-GAGUCUGUGAAAGUCAAUGACUUUCUGGGCCAAGUCACGUAUUGGCCAAAAAAAAAAAAAAAGCAGACU-UGCAAAA-AGGAACAAAGCU-------
............((......(.-(((((((((((((((...)))))))..((((((........))))))...............)))))))-).)....-.)).........------- ( -30.80)
>DroYak_CAF1 47594 109 + 1
GACAUAACAAAGCCACUUGGGGAGAGUCUGUGAAAGUCAUUGACACUCUCGGCCAAGUCACGUAUUGGCCGAAAAG---AAAAACGCAGACUUUGCAAAA-AGUAACAACGCU-------
..............((((..(.((((((((((...(((...)))....((((((((........))))))))....---.....)))))))))).)...)-))).........------- ( -34.10)
>DroAna_CAF1 43340 102 + 1
G-CAUAACAAAGCCACUUGGG---AGACGAGAAAAGUCAAUGACUU---GAG--CAGUCGCGUAUUGC-----GAG---AAAAAUGCGCACU-UUCCAAGGCUAAAGAAAGAUUUAAGCA
(-(........(((..(((((---((((.....(((((...)))))---...--..)))(((((((..-----...---...)))))))...-)))))))))((((......)))).)). ( -27.90)
>consensus
GACAUAACAAAGCCACUCGGGG_GAGUCUGUGAAAGUCAAUGACUUUCUGGGCCAAGUCACGUAUUGGCCAAAAAA___AAAAAAGCAGACU_UGCAAAA_AGGAACAAAGCU_______
............((....))....((((((((((((((...)))))))..((((((........))))))...............)))))))............................ (-15.20 = -18.08 +   2.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:57 2006