Locus 1997

Sequence ID 3L_DroMel_CAF1
Location 5,475,172 – 5,475,291
Length 119
Max. P 0.650647
window3127

overview

Window 7

Location 5,475,172 – 5,475,291
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 83.82
Mean single sequence MFE -35.52
Consensus MFE -29.86
Energy contribution -30.50
Covariance contribution 0.64
Combinations/Pair 1.11
Mean z-score -1.59
Structure conservation index 0.84
SVM decision value 0.24
SVM RNA-class probability 0.650647
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5475172 119 + 23771897
UAUUAAAUCAAAUAAUUGAUAAUGUUUGUAGAAUUUCCGCUCAGUGUCCCUGUGCUGCAAGUGUGAGUGUCCUGCCUCUGUCUGAGGUUGGACUUUGACAAGAGGACAUUAGGCUGGGU
......(((((....)))))...............(((((..((((((((((.....)...(((.((.((((.(((((.....))))).)))).)).))))).)))))))..)).))). ( -35.50)
>DroSec_CAF1 36669 119 + 1
UAUUUUUUUAAAUAAGUGAUAAUGCUUGUAGGUUUUCCGCUCAGUGUCCUUAUUCUGCAAGUGUGAGUGUCCUGCCUUUGUCUGAGGUUGGACUUUGACAAGAGGACAUUAGGCUGGGU
...........((((((......))))))......(((((..(((((((((..........(((.((.((((.(((((.....))))).)))).)).))).)))))))))..)).))). ( -36.40)
>DroSim_CAF1 38349 119 + 1
UAUUUUAUCAAAUAAUUGAUAAUGCUUGUAGGUUUUCCGCUCAGUGUCCUUAUUCUGCAAGUGUGAGUGUCCUGCCUCUGUCUGAGGUUGGACUUUGACAAGAGGACAUUAGGCUGGGU
....(((((((....))))))).............(((((..(((((((((..........(((.((.((((.(((((.....))))).)))).)).))).)))))))))..)).))). ( -38.70)
>DroEre_CAF1 36174 116 + 1
UACUGAAUUAUCUAUC---UAGUGUUUGGGGAAUUUCCGCUCAGUGUCUUGGUGCUGCGAGUGCGAGUGUCCUGCCUCUGUCUGAGGUCGGACUUUGACAAGAGGACAUUAGGCUGGGC
..........((((((---((((((...((((..((((((((((..(....)..))..))))).)))..)))).((((((((.(((......))).))).))))))))))))).)))). ( -38.00)
>DroYak_CAF1 24525 115 + 1
UAUAAUAUGAGUUAUC---UAAUUUUUGUAGCAUUUCCGCUCAGUGUCUUUGUGCAGCGAGUGUGAG-GCAGGACCUCUGUCUGAGGUUGGACUUUGACAAGAGGACAUUAGGCUGGGU
..........(((((.---........)))))...(((((..((((((.((.(((.((....))...-))).)).(((((((.(((......))).))).))))))))))..)).))). ( -29.00)
>consensus
UAUUAUAUCAAAUAACUGAUAAUGUUUGUAGAAUUUCCGCUCAGUGUCCUUGUGCUGCAAGUGUGAGUGUCCUGCCUCUGUCUGAGGUUGGACUUUGACAAGAGGACAUUAGGCUGGGU
...................................(((((..(((((((((..........(((.((.((((.(((((.....))))).)))).)).))).)))))))))..)).))). (-29.86 = -30.50 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:05 2006