Locus 1744

Sequence ID 3R_DroMel_CAF1
Location 5,042,050 – 5,042,140
Length 90
Max. P 0.930205
window2867

overview

Window 7

Location 5,042,050 – 5,042,140
Length 90
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 69.79
Mean single sequence MFE -23.44
Consensus MFE -13.92
Energy contribution -15.04
Covariance contribution 1.12
Combinations/Pair 1.16
Mean z-score -1.77
Structure conservation index 0.59
SVM decision value 1.20
SVM RNA-class probability 0.930205
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5042050 90 - 27905053
CAAGAUCAGCUCGAAGAAAUCGAUACUCAUUCCGGCUUCAGUUU-----GAG----------UUGUAUGAGAUUGCAACGCUGAUUACAAGG----------AACUUUAGAUCAU
...(((((((((((.....))))..(((((..((((((......-----)))----------))).)))))........)))))))......----------............. ( -21.10)
>DroSec_CAF1 148342 98 - 1
CAAGAUCAGCUUGAAGAAAUCGAUAGUCAUUCCGAUUUCAGUUU-----GUG----------UUGCAUGAGAUUGCAACGCUGAUUACGAGAAACU--UUAGAACUUUAGAUCAU
...((((..((((..(((((((..........)))))))((((.-----(((----------(((((......)))))))).)))).))))...(.--...).......)))).. ( -25.90)
>DroSim_CAF1 154124 99 - 1
CAAGAUCAGCUACAAGAAAUCGAUACUCAUUCCGAUUUCAGUUU-----GAG----------UUGCAUGAGAUUGCAACGCUGAUUACAAGAAACU-UUUAGAACUUUAGAUCAU
...(((((((.....(((((((..........))))))).....-----..(----------(((((......)))))))))))))..........-.................. ( -25.10)
>DroEre_CAF1 150457 114 - 1
CAAGAUCAGCUAUAAGAAAUCAAUACUCAUUCCGGUUUCAGUUAUGGCAGAGCUGGUUAAAUUUCGAUCACAUAAUAAUGUUGAUUACAAGACUCCAAAUAGAAGUUUAGCU-UU
..((.((.(((((((((((((............))))))..))))))).)).))(((((((((((((((((((....))).)))))....(....).....)))))))))))-.. ( -23.60)
>DroYak_CAF1 154489 103 - 1
CAAGAUCAGCUAUCAGAAAUCGAUACUCAUUCCGGUUUCAGUUAUAGUAGAGUUGGUUAGAUUUCUAUAAGACACUAAUGCUGAUUGCAAUGCU-----------UACAGCC-UU
...(((((((.....(((((((..........)))))))........(((.(((...(((....)))...))).)))..))))))).....((.-----------....)).-.. ( -21.50)
>consensus
CAAGAUCAGCUAGAAGAAAUCGAUACUCAUUCCGGUUUCAGUUU_____GAG__________UUGCAUGAGAUUGCAACGCUGAUUACAAGAAAC____UAGAACUUUAGAUCAU
...(((((((.....(((((((..........))))))).......................(((((......))))).)))))))............................. (-13.92 = -15.04 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:14 2006