Locus 3435

Sequence ID 2R_DroMel_CAF1
Location 11,588,398 – 11,588,518
Length 120
Max. P 0.888389
window5608

overview

Window 8

Location 11,588,398 – 11,588,518
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.20
Mean single sequence MFE -38.38
Consensus MFE -30.88
Energy contribution -31.20
Covariance contribution 0.32
Combinations/Pair 1.06
Mean z-score -1.98
Structure conservation index 0.80
SVM decision value 0.95
SVM RNA-class probability 0.888389
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11588398 120 + 20766785
AGGGAGCAGAAGGACGAAAGGGAACUCCCCUGGCAGCCUCUGUCUGGCAUUAAACACAUUUACACGCCCAUCUGGCAACAGCUGCUCCUCUUUGGCGUUCCUCCUCUCCGUCGCUCUAAU
..(((((.((.(((.((..((((((.((...((((((...((((.(((..((((....))))...))).....))))...)))))).......)).))))))..))))).)))))))... ( -38.20)
>DroSec_CAF1 21957 117 + 1
--GUGGCAGGAGGACGAAAGGGAACUCCCCUGGCAGCCUCUGUCUGGCAUUAAACACAUUUACACGCCCAUCUGGCAACAGCUGCUCCUCUUUUGCGUU-CUCCUCUCCAUCGCUCUAAU
--((((.(((((((((..((((.....))))((((((...((((.(((..((((....))))...))).....))))...)))))).........))))-)))))..))))......... ( -36.80)
>DroSim_CAF1 25222 119 + 1
AGGGAGCAGGAGGACGAAAGGGAACUCCCCUGGCAGCCUCUGUCUGGCAUUAAACACAUUUACACGCCCAUCUGGCAACAGCUGCUCCUCUUUGGCGUU-CUCCUCUCCAUCGCUCUAAU
..((((.(((((((((..((((.....))))((((((...((((.(((..((((....))))...))).....))))...)))))).........))))-)))))))))........... ( -41.50)
>DroEre_CAF1 22718 117 + 1
--GGGGCAGGAGGCCGAAAGGGAACUCCCCUGGCAGCCUCUGUCUGGCAUUAAACACAUUUACACGCCCAUCUGGCAACAGCUGCUCCUCUUUGGCGUU-CUCCACUCCGCCGCUCUAAU
--((((((((((((.(..((((.....))))..).))))).....(((..((((....))))...)))...(((....)))))))))).....((((..-........))))........ ( -40.50)
>DroYak_CAF1 22740 117 + 1
--GUGGCAGGAGGUCGAAAGGGAACUCCCCUGGCAGCCUCUGUCUGGCAUUAAACACAUUUACACGCCCAUCUGGCAACAGCUGCUCCUCUUUGGCGUU-CUCCUCUCCGUCGCUCUAAU
--(((((.((((((((..((((.....))))(((((...)))))))))...............(((((((.(((....))).)).........))))).-.....)))))))))...... ( -34.90)
>consensus
__GGGGCAGGAGGACGAAAGGGAACUCCCCUGGCAGCCUCUGUCUGGCAUUAAACACAUUUACACGCCCAUCUGGCAACAGCUGCUCCUCUUUGGCGUU_CUCCUCUCCGUCGCUCUAAU
..(((((((((((.....((((.....))))((((((...((((.(((..((((....))))...))).....))))...))))))))))))(((.(........).)))..)))))... (-30.88 = -31.20 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:28 2006