Locus 1904

Sequence ID 2R_DroMel_CAF1
Location 7,173,499 – 7,173,597
Length 98
Max. P 0.861963
window3156

overview

Window 6

Location 7,173,499 – 7,173,597
Length 98
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 77.83
Mean single sequence MFE -31.28
Consensus MFE -17.66
Energy contribution -17.13
Covariance contribution -0.52
Combinations/Pair 1.28
Mean z-score -2.02
Structure conservation index 0.56
SVM decision value 0.83
SVM RNA-class probability 0.861963
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7173499 98 - 20766785
GGUCGCAAGUGCGAAAAUUCUCGAUCACUUGCCAUUUAGAUA----UA-----UGU--AUAUGCCACGAUUUAAGGGCUAUAUUUAGGCC-------CGAUC-CCAGACAGAU-CCGC
((((((((((((((......)))..)))))))..........----((-----.((--(((.(((.(.......))))))))).))))))-------.((((-.......)))-)... ( -24.60)
>DroSec_CAF1 6962 104 - 1
GGUCGCAAGUGCGAAAAUUCUCGAUCACUUGCCAUUUACAUACAUAUA-----UGUACAUAUGCCACGAUUUAAGGGCUAUAUUUAGGCC-------CGAUC-CCAGACAGAU-CCGC
(((.((((((((((......)))..)))))))....((((((....))-----)))).....))).((......(((((.......))))-------)((((-.......)))-))). ( -27.20)
>DroSim_CAF1 5623 104 - 1
GGUCGCAAGUGCGAAAAUUCUCGAUCACUUGCCAUUUACAUACAUAUA-----UGUACAUAUGCCACGAUUUAAGGGCUAUAUUUAGGCC-------CGAUC-CCAGACAGAU-CCGC
(((.((((((((((......)))..)))))))....((((((....))-----)))).....))).((......(((((.......))))-------)((((-.......)))-))). ( -27.20)
>DroEre_CAF1 4591 97 - 1
GGUCGCAGGUGCGAAAAUUCUCGAUCGCCUGCUAUGUACAUAC----------UGU--AUAUGGCACGAUUUAAGGGCUAUAUUUAGGCC-------CGAUC-CCAGACAGAU-UCGC
((((((....))))........((((.(.((((((((((....----------.))--)))))))).)......(((((.......))))-------)))))-))........-.... ( -31.20)
>DroYak_CAF1 5580 98 - 1
GGUCGCAGGUGCGAAAGUUCUCGAUCGUUUGCUAUGUACAUACAUA-------UGU--AUGUGCCACCAUUUAAGGGCUAUUUUUAGGCC-------CGAUC-CCAGACAGAU-U--C
(((((.(((.((....))))))))))(((((....((((((((...-------.))--))))))..........(((((.......))))-------)....-.)))))....-.--. ( -32.70)
>DroAna_CAF1 4514 112 - 1
GGUCGCAAGUGUGAGAUUUAACGAGCACUCGCUAUUGUGGCC----UGUGGGCUGU--GGACUGAGGGAUAGGUGGUCUAUAUUUAGGCCUUCGCCACGAUCCCCAGACAGAUUCCGC
((((((((..(((((............)))))..))))))))----.((((..(.(--(..(((.(((((.(((((((((....))))))...)))...)))))))).)).)..)))) ( -44.80)
>consensus
GGUCGCAAGUGCGAAAAUUCUCGAUCACUUGCCAUUUACAUAC___UA_____UGU__AUAUGCCACGAUUUAAGGGCUAUAUUUAGGCC_______CGAUC_CCAGACAGAU_CCGC
.(((((((((((((......)))..)))))))..........................................((.(((....))).))................)))......... (-17.66 = -17.13 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:03 2006