Locus 4088

Sequence ID 2L_DroMel_CAF1
Location 11,776,559 – 11,776,675
Length 116
Max. P 0.635746
window6442

overview

Window 2

Location 11,776,559 – 11,776,675
Length 116
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 86.21
Mean single sequence MFE -27.81
Consensus MFE -18.84
Energy contribution -20.08
Covariance contribution 1.24
Combinations/Pair 1.04
Mean z-score -1.96
Structure conservation index 0.68
SVM decision value 0.21
SVM RNA-class probability 0.635746
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11776559 116 - 22407834
CCAGGUAAAUCCAUAAAAAGGGAAAGCAAUCGGAUGCCAUUGAAAGCCAAUAGAAUGUGGGUUACU-UAAUUACCAGAUUCAGCUGAAUCAGCCAGGACUGAAAGGGGCCCAAAGCU
...((((((((((((.....((....((((.((...))))))....)).......)))))))....-...))))).(((((....)))))(((..((.((....))..))....))) ( -24.01)
>DroSec_CAF1 34495 100 - 1
CCAGGUAAAUCCAUAAAAAGCGAAAGCAAUUGGAUGCCAUUGAAUGCCAAUAGAAUGUGGGUUACUUUAAUUACCAGAUUCAGCUGAAUCAGCCUGGAC-----------------U
((((((.((((((((....((....)).(((((((........)).)))))....)))))))).............(((((....))))).))))))..-----------------. ( -31.60)
>DroSim_CAF1 33592 100 - 1
CCAGGUAAAUCCAUAAAAAGCGAAAGCAAUUGGAUGCCAUUGAAUGCCAAUAGAAUGUGGGUUACUUUAAUUACCAGAUUCAGCUGAAUCAGCCUGGAC-----------------U
((((((.((((((((....((....)).(((((((........)).)))))....)))))))).............(((((....))))).))))))..-----------------. ( -31.60)
>DroEre_CAF1 44992 116 - 1
CCAGGUAAAUCCAUAAAAAGGGAAAGCAAUCGGAUGCCGUAGCAAGCCAAUAGAAUGUGGGUUACUUUAAUUACCAGAUUCAGCUGACUCAGCCUUGACUGCAAGU-UCCCAAAGCU
...((.....)).......(((((.(((......))).((((((((......((((.(((.............))).)))).((((...)))))))).))))...)-))))...... ( -29.22)
>DroYak_CAF1 36050 115 - 1
CCAGGUAAAUCCAUAAAAAGGGAAAGCAAUCGGAUGCCAUAGAAAGCCAAUAGAAUGUGGGUUACUUUAAUUACCAGAUUCAGCUGAAUCAGCCCUGACUGAAAGG--CCCAAAGCU
...((.....)).......(((....((.((((...................((((.(((.............))).)))).((((...)))).)))).)).....--)))...... ( -22.62)
>consensus
CCAGGUAAAUCCAUAAAAAGGGAAAGCAAUCGGAUGCCAUUGAAAGCCAAUAGAAUGUGGGUUACUUUAAUUACCAGAUUCAGCUGAAUCAGCCUGGACUG_AAG___CCCAAAGCU
((((((.((((((((..........(((......))).((((.....))))....)))))))).............(((((....))))).)))))).................... (-18.84 = -20.08 +   1.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:02 2006