Locus 6001

Sequence ID 3R_DroMel_CAF1
Location 15,792,804 – 15,792,907
Length 103
Max. P 0.985607
window9796

overview

Window 6

Location 15,792,804 – 15,792,907
Length 103
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 86.47
Mean single sequence MFE -41.06
Consensus MFE -31.62
Energy contribution -33.06
Covariance contribution 1.44
Combinations/Pair 1.14
Mean z-score -2.73
Structure conservation index 0.77
SVM decision value 2.01
SVM RNA-class probability 0.985607
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15792804 103 + 27905053
GACUUUUUGAGUGAAGGAUGUGGUUUGGCCUCAAAAAGACCAACUUGGCAUCGCUUGUGGCAGGACUCUGUGUCUGCGUCGCAGGACGCGUUCGAGUCUGUCA
...((((((((.(..((((...))))..)))))))))(((..((((((...((((((((((.((((.....))))..)))))))).))...))))))..))). ( -34.50)
>DroSec_CAF1 14186 99 + 1
GGCUUUUUGAGCGAAGG----GGUUUGGCCUGAAAAAGGCCAACUUGGCAUCGCUUGUGGCAGGACUCUGUGUCUGCGUCGCAGGACGCAUUCGAGUCUGUCA
.(((...(((((((.((----((((.(((((.....))))))))))..).))))))).))).(((((((((((((((...))).))))))...)))))).... ( -40.00)
>DroSim_CAF1 18669 103 + 1
GACUUUUCGAGCGAAGGAUGUGGUUUGGCCUGAAAAAGGCCAACUUGGCAUCACUUGUGGCAGGACUCUGUGUCUGCGUCGCAGGACGCGUUCGAGUCUGUCA
(((..((((((((...(((((.(.(((((((.....)))))))..).))))).((((((((.((((.....))))..))))))))...))))))))...))). ( -49.00)
>DroEre_CAF1 18157 100 + 1
AACUUUCCGUGUGAAGGAUGUUGGAUGGCCGGAAAACGGCCAACUUGGCAUCGCUUGUGGCAGGACC---UGUCUGUGUCGCAGGACGCGUUCGAGUCUGUCA
.((((..(((((....(((((..(.((((((.....))))))..)..))))).((((((((((((..---..))).))))))))))))))...))))...... ( -40.60)
>DroYak_CAF1 35880 100 + 1
AGCUUUUCGAGUGAAGGAUGUUGGUUGGCCUGAAAAGGGCCAAAUUGGCAUCGCUGGUGGCAGGACU---UGUCUCUGUCGGAGGACGAGUUCGAGUCUGUCA
(((.((((....))))(((((..((((((((.....))))).)))..))))))))..((((((.(((---((.(((.(((....))))))..))))))))))) ( -41.20)
>consensus
GACUUUUCGAGUGAAGGAUGUGGUUUGGCCUGAAAAAGGCCAACUUGGCAUCGCUUGUGGCAGGACUCUGUGUCUGCGUCGCAGGACGCGUUCGAGUCUGUCA
(((..((((((((...(((((...(((((((.....)))))))....))))).((((((((.((((.....))))..)))))))).)))..)))))...))). (-31.62 = -33.06 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:11 2006