Locus 3424

Sequence ID 2R_DroMel_CAF1
Location 11,575,861 – 11,575,981
Length 120
Max. P 0.500000
window5585

overview

Window 5

Location 11,575,861 – 11,575,981
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.41
Mean single sequence MFE -31.94
Consensus MFE -24.18
Energy contribution -25.06
Covariance contribution 0.88
Combinations/Pair 1.17
Mean z-score -1.50
Structure conservation index 0.76
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11575861 120 + 20766785
CGAAUGUUAAUCUGCGGAUGGAAAUCCUUGUCCAAAUUAACGUCAAAAUGUCCUGUGUCAUCAUCUCGCAAGGACAUGGCUAUGCUACUGUGAGUAGCGCCAAAAGUUUGAAGGUACAAU
....(((((((.((.((((....)))).....)).)))))))(((((((((((((((.........))).)))))))(((...(((((.....)))))))).....)))))......... ( -32.70)
>DroSec_CAF1 12275 120 + 1
CGAAUGUUAAUCUGUGGAUGGUAAUCCUUGUCCAAAUUAACGUCAAAAUGUCCUGUGUCAUCAACUCGCAAGGACAUGGCUAUGCUACUGUGAGCAGUGCCAAAACUUUGAAGCUACAAU
....(((((((...((((..(......)..)))).)))))))(((((((((((((((.........))).)))))))(((..((((......))))..))).....)))))......... ( -33.40)
>DroSim_CAF1 13037 120 + 1
CGAAUGUUAAUCUGCGGAUGGAAAUCCUUGUCCAAAUUAACGUCAAAAUGUCCUGUGUCAUCAUCUCGCAAGGACAUGGCUAUGCUACUGUGAGCAGUGCCAAAACUUUGAAGCUACAAU
....(((((((.((.((((....)))).....)).)))))))(((((((((((((((.........))).)))))))(((..((((......))))..))).....)))))......... ( -31.70)
>DroEre_CAF1 12468 113 + 1
UGAAGGUUAAUCUGUGGAUGGAAAUCCUUGUCCAAAUUAGCGUCAAAAUGUCCUGUGUCAUCAUCUCCGGAGGACAUGGCUGUGUUACUGUGAGCACCGCCAAAAGUUUGUAG-------
(((..((((((...(((((((....))..))))).)))))).)))..(((((((.((..........)).)))))))(((.(((((......))))).)))............------- ( -32.90)
>DroYak_CAF1 12640 110 + 1
UGACGGUUGAUCUGUGGAUGCAAAUCCUUGUCCAAAUUAGCGUCAAAAUGUCCUGUGUGAUCGUUUUCGAAGGACAUGGCUAUGUUACUUUGAGCAC---CAAAAGUUUGAUG-------
.(((..(((......((((....)))).((..((((.((((((....(((((((...(((......))).)))))))....)))))).))))..)).---)))..))).....------- ( -29.00)
>consensus
CGAAUGUUAAUCUGUGGAUGGAAAUCCUUGUCCAAAUUAACGUCAAAAUGUCCUGUGUCAUCAUCUCGCAAGGACAUGGCUAUGCUACUGUGAGCAGCGCCAAAAGUUUGAAG_UACAAU
.....((((((...(((((((....))..))))).)))))).(((((((((((((((.........)))).))))))(((..((((......))))..))).....)))))......... (-24.18 = -25.06 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:07 2006