Locus 3653

Sequence ID 3R_DroMel_CAF1
Location 9,869,778 – 9,869,882
Length 104
Max. P 0.564853
window5870

overview

Window 0

Location 9,869,778 – 9,869,882
Length 104
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 78.15
Mean single sequence MFE -25.32
Consensus MFE -17.22
Energy contribution -16.75
Covariance contribution -0.47
Combinations/Pair 1.29
Mean z-score -1.14
Structure conservation index 0.68
SVM decision value 0.06
SVM RNA-class probability 0.564853
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9869778 104 - 27905053
UUUUAGUUUUCGUACCUUUUGGUUUCCUGGCUGGAGUCAUACAUCAAUAU--AUUUUGGCUGCCUGAUUUGCGGCUAGGCAUAUAUAUUUUCUUCUGAUGCC-----------GCGC
((((((((.....(((....))).....)))))))).....(((((((((--(((((((((((.......))))))))).)))))).........)))))..-----------.... ( -23.60)
>DroPse_CAF1 87532 112 - 1
UUCUAUUUUU----UUUUUGGAUUUCUUGGCUGGAGUCAUAUAUCAAUAUAUAUUUUGGCUGCCUGAUGUGCGGUGAGGCAUCGGCAUAGCCAUC-GAUAUGAGUAUGAAUACGAGC
.((((.....----....)))).......(((.(..((((((.(((.(((......((((((((.(((((........))))))))..)))))..-.))))))))))))...).))) ( -26.60)
>DroSec_CAF1 73999 96 - 1
UUUUAGUUUUCGUACCUUUUGGUUUCCUGGCUGUAGUCAUACAUCAAUAU--AUUUUGGCUGCCUGAUGUGCGGCUAGGCAUAUAUAUUUUCCUCGGA-------------------
........((((.(((....)))..((((((((((((((..((((((...--...)))).))..)))).))))))))))...............))))------------------- ( -23.10)
>DroSim_CAF1 76677 112 - 1
UUUUAGUUUUCGUACCUUUUGGUUUCCUGGCUGGAGUCAUACAUCAAUAU--AUUUUGGCUGCCUGAUGUGCGGCUAGGCAUAUAUAUUUUCCUCGGAUACCGCCCU---CCCGCGC
....................(((.(((((((....)))).......((((--((((((((((((....).))))))))).)))))).........))).)))((...---...)).. ( -25.90)
>DroEre_CAF1 74494 112 - 1
UUUUAGUUUUCCUACCUUUUGGUUUCCUGGCUGGAGUCAUACAUCAAUAU--AUUUUGGCUGCCUGACGUGCGGCUAGGCAUAUAUAUUUUCUGCUGAUAUCGCCCU---CCCGCGC
.(((((((.....(((....))).....)))))))((((..((((((...--...)))).))..))))((((((...(((....(((((.......))))).)))..---.)))))) ( -28.40)
>DroYak_CAF1 75915 100 - 1
UUUUGGUUUUCCUACCUUUUGGUUUCCUGGCUGGAGCCAUACAUCAAUAU--AUUUUGGCUGCCUGAUGUGCGGCUAGGCAUAUAUAUUUCC-----------CCCC---GCCGC-C
....(((......)))....(((....((((....)))).......((((--((((((((((((....).))))))))).))))))......-----------....---)))..-. ( -24.30)
>consensus
UUUUAGUUUUCGUACCUUUUGGUUUCCUGGCUGGAGUCAUACAUCAAUAU__AUUUUGGCUGCCUGAUGUGCGGCUAGGCAUAUAUAUUUUCCUC_GAUA_C_CCCU____CCGCGC
.............(((....)))..((((((((..((((..((((((........)))).))..))))...))))))))...................................... (-17.22 = -16.75 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:37 2006