Locus 1241

Sequence ID 3R_DroMel_CAF1
Location 3,742,600 – 3,742,695
Length 95
Max. P 0.774202
window2023

overview

Window 3

Location 3,742,600 – 3,742,695
Length 95
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 71.20
Mean single sequence MFE -17.85
Consensus MFE -8.94
Energy contribution -10.22
Covariance contribution 1.28
Combinations/Pair 1.13
Mean z-score -1.77
Structure conservation index 0.50
SVM decision value 0.54
SVM RNA-class probability 0.774202
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3742600 95 + 27905053
UAAACAAAAA---AAAACAUAAUCUUCUUAAA----------ACUA----------ACUAAAAUACU-UCG-ACUCACAUCUCGAAGAGUUUCUUUAGCUCCGCGAGGUUGAGACCACCG
..........---...................----------....----------...........-...-.((((.((((((..(((((.....)))))..))))))))))....... ( -17.20)
>DroSec_CAF1 4612 93 + 1
UAACUGAAAACAAAAA------ACAUCUUAAA----------ACAA----------AUUCAAAUACU-UCGGACUUACAUCUCGAGGAGUUUCGUUAGCUCCGCGAGGUCGAGACCACCG
................------..........----------....----------...........-..((.(((..((((((.((((((.....)))))).)))))).))).)).... ( -20.20)
>DroSim_CAF1 4437 99 + 1
UAACUGAAAACCAAAAACAUAAACAUCUUAAA----------ACAA----------AUUCAAAUACU-UCGGACUCACAUCUCGAGGAGUUUCUUUAGCUCCGCGAGGUUGAGACCACCG
................................----------....----------...........-..((.((((.((((((.((((((.....)))))).)))))))))).)).... ( -24.20)
>DroEre_CAF1 4184 109 + 1
UAAAUGAAAACAAACAACAUAAACUUUUUAAAUAGAUAAUUAACGAC----------UUAAAAUAUAGUUU-CCUCACAUCGCAAACAGUUUGUUCAGCUCCCCGGGGUUGAGACCACCG
..................(((((((.(((.....(((.......(((----------(........)))).-......)))..))).)))))))(((((((....)))))))........ ( -14.24)
>DroYak_CAF1 5365 118 + 1
UAAAUGAAAACAAGAAACAUAAACUUCUUAAAUACAUACAUACAUACUAAAUUAUAAUUAAAGUACA-UUG-UCUCACAAUGCAAACAGUUUCUUUAGCUCGUCGAGGUUGAGACCACCG
...((((....(((((((..........................((((.............))))((-(((-.....)))))......)))))))....))))...(((....))).... ( -13.42)
>consensus
UAAAUGAAAACAAAAAACAUAAACUUCUUAAA__________ACAA__________AUUAAAAUACU_UCG_ACUCACAUCUCGAAGAGUUUCUUUAGCUCCGCGAGGUUGAGACCACCG
.........................................................................((((.((((((..(((((.....)))))..))))))))))....... ( -8.94 = -10.22 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:24 2006