Locus 9345

Sequence ID 3R_DroMel_CAF1
Location 24,829,352 – 24,829,445
Length 93
Max. P 0.838671
window14956

overview

Window 6

Location 24,829,352 – 24,829,445
Length 93
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 79.04
Mean single sequence MFE -20.79
Consensus MFE -10.04
Energy contribution -11.65
Covariance contribution 1.61
Combinations/Pair 1.30
Mean z-score -2.47
Structure conservation index 0.48
SVM decision value 0.74
SVM RNA-class probability 0.838671
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24829352 93 + 27905053
AAUAACGUUUAUGUAUUGGCCAGUCAAAUAUUGCCA---AGCAAUUGCCUCAUACUCGCAUUUUCGCAUGGCCAUAGCGGCAAUCA--AAGCCAAAUU
............((..((((((.......(((((..---.)))))............((......)).))))))..))(((.....--..)))..... ( -19.10)
>DroVir_CAF1 76234 89 + 1
CAUAACAUUUAUGUUUGAGUUAGGCAAAUAUUAAUA---AGC-UUUGCCUCGCUUUCGCAUUACCACAUGCUCA--AUAACAAUCA--UAU-CAAAUC
.........((((.((((((.(((((((........---...-))))))).)))...((((......))))...--....))).))--)).-...... ( -15.90)
>DroGri_CAF1 77806 95 + 1
CAUAACAUUUAUGUAUGAGCCAGGCAAAUACUAAUAAUCAGC-AUUGCCUCGCACUCGCAUUGCCACAUGCCCA-AAUAACAAUCAAACAU-CAAAUC
......((((((((.(((((.((((((...((.......)).-.)))))).))....((((......))))...-........))).))))-.)))). ( -16.40)
>DroSim_CAF1 48648 93 + 1
AAUAACGUUUAUGUAUUGGCCAGGCAAAUAUUGCCA---AGCAAUUGCCUCAUACUCGCAUUUUCGCAUGGCCAUAGCGGCAAUCA--AAGCCAAAUU
............((..((((((((((...(((((..---.)))))))))........((......)).))))))..))(((.....--..)))..... ( -25.30)
>DroEre_CAF1 40249 93 + 1
AAUAACGUUUAUGUAUUGGCCAGGCAAAUAUUGCCA---AGCAAUUGCCUCAUACUCGCAUUUUCGCAUGGCCAUAGCGGCAAUCA--AAGCCAAAUU
............((..((((((((((...(((((..---.)))))))))........((......)).))))))..))(((.....--..)))..... ( -25.30)
>DroAna_CAF1 40084 91 + 1
CAUAACGUUUAUGUAUUGGCUGGGCAAAUAUUGCCA---AGCAAUUGCCUCACAUUCGCAUC--GGCAUGGCCAUAACAGCAAUCA--AAGCGAAAUU
.....(((((.((.((((.(((((((.....)))).---.((...((((.............--))))..)).....)))))))))--)))))..... ( -22.72)
>consensus
AAUAACGUUUAUGUAUUGGCCAGGCAAAUAUUGCCA___AGCAAUUGCCUCACACUCGCAUUUUCGCAUGGCCAUAACAGCAAUCA__AAGCCAAAUU
...........(((..(((((((((((...((((......)))))))))........((......)).))))))..)))................... (-10.04 = -11.65 +   1.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:32:18 2006