Locus 5084

Sequence ID 3L_DroMel_CAF1
Location 13,952,275 – 13,952,389
Length 114
Max. P 0.530842
window8057

overview

Window 7

Location 13,952,275 – 13,952,389
Length 114
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.04
Mean single sequence MFE -32.70
Consensus MFE -19.83
Energy contribution -20.30
Covariance contribution 0.47
Combinations/Pair 1.20
Mean z-score -1.86
Structure conservation index 0.61
SVM decision value -0.01
SVM RNA-class probability 0.530842
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13952275 114 - 23771897
AUAAUAAACUGGAUUUAUCCAGAGCGCCUACGUUUG---UUGGGUCCAGCAUUUGCCCGCUUCUUGGC---GGCAACAGGUGUUCGCUUCUUAGCCGCCUUCUUGUUAUUACUUUUCUUG
(((((((.(((((....)))))((((....((..((---(((....)))))..))..))))....(((---(((((.((((....)))).)).))))))...)))))))........... ( -33.40)
>DroPse_CAF1 9932 105 - 1
UU-AUAGAAU--AUUUAACCAGAUCGCCUGCGAUUUCUUUUGGCAACGGCGUUGAUCCGCUUCUUGGC---UGCAACAGGUGUCUGCUUCUUGGCAGCGGCCUG---------CUUCCUG
..-.......--.......(((...(((.((((((....(((....)))....))).))).....)))---.....(((((..(((((....)))))..)))))---------....))) ( -25.80)
>DroSec_CAF1 7895 114 - 1
AUAAUAAACUGGAUUUAUCCAGAGCGCCUGCGUUUG---UUGGCUCCAGCAUUUGCCCGCUUCUUGGC---GGCAACAGGUGUUCGCUUCUUAGCCGCCCUCUUGUUAUUAUUUUUCUUG
(((((((.(((((....)))))((((...(((..((---(((....)))))..))).))))....(((---(((((.((((....)))).)).))))))......)))))))........ ( -36.80)
>DroSim_CAF1 7993 114 - 1
AUAAUAAACUGGAUUUAUCCAGAGCGCCUGCGUUUG---UUGGCUCCAGCAUUUGCCCGCUUCUUGGC---GGCAACAGGUGUUCGCUUCUUAGCCGCCCUCUUGUUAUUAUUUUUCUUG
(((((((.(((((....)))))((((...(((..((---(((....)))))..))).))))....(((---(((((.((((....)))).)).))))))......)))))))........ ( -36.80)
>DroEre_CAF1 8078 115 - 1
AC-AUGAUCUGG-UUUAUCCAGAGCGCCUGCGUUUG---UUGGCCACAGCAUUUGCCCGCUUCUUGGCGGCGGCAACAGGUGUUUGCUUCUUAGCCGCCUUCUUGUUAGUAUUUUUCUUG
((-(.(((((((-.....)))))(((...(((..((---(((....)))))..))).))).....(((((((....)((((....))))....)))))).)).))).............. ( -35.50)
>DroYak_CAF1 8440 113 - 1
AC-AUAAACUGGAUUUAUCUAGAGCGCCUGCGUUUG---UUGGCCGCACCAUUUGUCCGCUUCUUGGC---GGCAACAGGUGUUUGCUUCUUAGCCACUUUCUUCUUGUUAUUUUUCUUG
..-.....(((((....)))))((((((.((....)---).))).(((((..(((.(((((....)))---)))))..)))))..)))................................ ( -27.90)
>consensus
AU_AUAAACUGGAUUUAUCCAGAGCGCCUGCGUUUG___UUGGCUCCAGCAUUUGCCCGCUUCUUGGC___GGCAACAGGUGUUCGCUUCUUAGCCGCCUUCUUGUUAUUAUUUUUCUUG
.........(((......)))(((((((((..........((....))....(((((.(((....)))...))))))))))))))(((....)))......................... (-19.83 = -20.30 +   0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:36 2006