Locus 7729

Sequence ID 3R_DroMel_CAF1
Location 20,749,323 – 20,749,420
Length 97
Max. P 0.718736
window12464

overview

Window 4

Location 20,749,323 – 20,749,420
Length 97
Sequences 5
Columns 103
Reading direction reverse
Mean pairwise identity 83.89
Mean single sequence MFE -26.06
Consensus MFE -19.44
Energy contribution -19.12
Covariance contribution -0.32
Combinations/Pair 1.17
Mean z-score -1.77
Structure conservation index 0.75
SVM decision value 0.39
SVM RNA-class probability 0.718736
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20749323 97 - 27905053
GAGGCGACUGAUUUGGUUCAUCCAGGCCAUCACUUUCCAUCAGUAGUGAGGGCAUUUCUUCCUCUGC------UUGCUCAUCUACUGCACUAGCUUCUUUUAG
(((((((.((..((((.....))))..)))).........((((((((((((((..........)))------)..)))).)))))).....)))))...... ( -25.70)
>DroSec_CAF1 8451 97 - 1
GAGGCGACUGAUUUGGUUCAUCCAGGCCUUCACUUUCCAUCAGUAGUGAGGGCAUUUCUUCCUCUGC------UUGCUCAUCUACGGCAUUAGCUACUUUUAG
((((........((((.....))))(((((((((..........))))))))).......)))).((------(((((.......))))..)))......... ( -26.20)
>DroSim_CAF1 8413 97 - 1
GAGGCGACUGAUUUGGUUCAUCGAGGUCUUCACUUUCCAUCAGUAGUGAGGGCAUUUCUUCCUCUGC------UUGCUCAUCUACGGCAUUAGCUACUUUUAG
(((((((.(((......))))))..(((((((((..........))))))))).......)))).((------(((((.......))))..)))......... ( -24.70)
>DroEre_CAF1 8729 103 - 1
GAGGCGACUGGCUUGAUUCAUCCAGGCCUUCACUUUCCAUCAGCAGUGAGGGCAUUUCUUCCUCUGCAAAAAGUUGCUCAUCUACUGCAUUAGCUACUUCUAA
..(((((..((((((.......)))))).))...........((((((((((.......))))).((((....))))......)))))....)))........ ( -27.30)
>DroYak_CAF1 8519 94 - 1
GAGGCGAGUGGCUUGGUUCAUCAACGCCCUCACUUUCCAUCAAUAGUGAGGGCAUUUCUUCCUCUACAAAAACU---UCAUCGACUG------CUGUUUCUAA
(((((.((..(.((((((....)))(((((((((..........))))))))).....................---....))))..------)))))))... ( -26.40)
>consensus
GAGGCGACUGAUUUGGUUCAUCCAGGCCUUCACUUUCCAUCAGUAGUGAGGGCAUUUCUUCCUCUGC______UUGCUCAUCUACUGCAUUAGCUACUUUUAG
((((.((.(((......)))))...(((((((((..........))))))))).......))))....................................... (-19.44 = -19.12 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:07 2006