Locus 3208

Sequence ID 3R_DroMel_CAF1
Location 8,537,866 – 8,537,959
Length 93
Max. P 0.514669
window5195

overview

Window 5

Location 8,537,866 – 8,537,959
Length 93
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 70.20
Mean single sequence MFE -18.91
Consensus MFE -12.15
Energy contribution -11.32
Covariance contribution -0.83
Combinations/Pair 1.55
Mean z-score -0.99
Structure conservation index 0.64
SVM decision value -0.04
SVM RNA-class probability 0.514669
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8537866 93 + 27905053
CAUUCCUUUCUCCAGCGCCAUUAAGGUGCUGUUUCCGAAGUUGAACGACUGCGAGAAUGCCAUUGCGCCGGUGCGUUUUUA-UACUGAACUAAG
(((((.......(((((((.....)))))))....((.((((....)))).)).))))).....((((....)))).....-............ ( -22.10)
>DroVir_CAF1 23211 76 + 1
UAAAUCGUUUUCCAGUUUCAUGAACGUACUGUCGCCAAACUCAAAAGAUUGUGAAAAUGCCAUCAU------------UUGAUAAUUG------
.....(((((((((((((..(((.................)))..)))))).)))))))..(((..------------..))).....------ (  -9.73)
>DroSec_CAF1 13862 87 + 1
CAUUCCUCUUUCCAGCGCCAUUAAGGUGCUGUUUCCGAAAUUGAACGACUGCGAGAAUGACAUUGUG------ACUUCUUA-CAUUGAAAUAAC
(((((.((....(((((((.....)))))))....((........)).....))))))).((.((((------(....)))-)).))....... ( -19.80)
>DroSim_CAF1 14643 87 + 1
CAUUCCUCUUUCCAGCGCCAUUAAGGUGCUGUUUCCGAAAUUGAACGACUGCGAGAAUGACAUUGUG------ACUUCCUA-CAUUGAAAUAAC
(((((.((....(((((((.....)))))))....((........)).....))))))).((.((((------......))-)).))....... ( -19.00)
>DroEre_CAF1 16469 92 + 1
CAUACCCUUCUCCAGCGCCAUCAAGGUGCUGUUUCCGAAGUCGAACGACUGCGAAAAUGCCAUUGCAAGGGUCAC-UUUUA-UGUUUAAAUAUU
...((((((...(((((((.....)))))))((((...((((....))))..))))..........))))))...-.....-............ ( -24.40)
>DroYak_CAF1 14088 92 + 1
CAUACCCUUUUCCAGUGCCAUCAAGGUGCUGUUUCCGAAAUCAAACGACUGCGAAAAUGCCAUUGCACUGGUUUC-UUUCA-CAUUCAAUUAAU
............(((..((.....))..)))...............((.((.((((..((((......))))...-)))).-)).))....... ( -18.40)
>consensus
CAUACCUUUUUCCAGCGCCAUUAAGGUGCUGUUUCCGAAAUCGAACGACUGCGAAAAUGCCAUUGCG______AC_UUUUA_CAUUGAAAUAAC
............(((((((.....)))))))...................((((........))))............................ (-12.15 = -11.32 +  -0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:43 2006