Locus 1668

Sequence ID 2R_DroMel_CAF1
Location 6,315,365 – 6,315,475
Length 110
Max. P 0.505096
window2786

overview

Window 6

Location 6,315,365 – 6,315,475
Length 110
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 79.49
Mean single sequence MFE -33.84
Consensus MFE -12.88
Energy contribution -13.68
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.99
Structure conservation index 0.38
SVM decision value -0.06
SVM RNA-class probability 0.505096
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6315365 110 - 20766785
UCGUUGCGG-GGGCUGGCCACGUGCCGUUCUCAUUCGGCCGUUUCUGGUUUUCCUGUUUUUCCUGCUG---CUGCUGCACUUGCAACAGCAGCCAAAAAACCUUGACAUUAAGC
..(((..(.-.(((..(..(((.((((........)))))))..)..)))..)..((((((...((((---(((.(((....))).)))))))..))))))...)))....... ( -39.70)
>DroSec_CAF1 65524 114 - 1
UCGUUCCGGGGGGCUGGCCACGUGCCGUUCUCUUUCGGCCGUUUCUGGUUUUUCUGUUUUUCCUGCUGCUGCUGCUGCACUUGCAAAAGCAGCCAAAAAACCUUGACAUUAAGC
..(((..(..((((..(..(((.((((........)))))))..)..))))..).((((((...((((((..(((.......)))..))))))..))))))...)))....... ( -37.30)
>DroSim_CAF1 43341 114 - 1
UCGUUCCGGGGGGCUGGCCACGUGCCGUUCUCUUUCGGCCGUUUCUGGUUUUUCUGUUUUUCCUGCUGCUGCUGCUGCACUUGCAACAGCAGCCAAAAAACCUUGACAUUAAGC
..(((..(..((((..(..(((.((((........)))))))..)..))))..).((((((...(((((((.(((.......))).)))))))..))))))...)))....... ( -39.90)
>DroEre_CAF1 60595 86 - 1
UCGUUUGGG-GGGCAGGCCACGUGCCGUUCUCG-----------------UUUCUGUUUUUCCUG---------CUGCACUUGCAACAGCAGCCAAA-AACCUUGACAUUAAGC
..(((((((-((((.(((.....)))))))))(-----------------((...((((((.(((---------(((.........))))))..)))-)))...)))..))))) ( -24.00)
>DroYak_CAF1 87002 86 - 1
UCAUUUGGGGGGGCAGGACACGUGCCGUUCU-------------------GUUCUGUUUUUCCUG---------CUGCACUUUCAGCAGCAGCCAAAAAACCUUGACAUUAAGC
....(..((((((((((((.......)))))-------------------))))..((((..(((---------((((.......)))))))..))))..)))..)........ ( -28.30)
>consensus
UCGUUCCGGGGGGCUGGCCACGUGCCGUUCUCUUUCGGCCGUUUCUGGUUUUUCUGUUUUUCCUGCUG___CUGCUGCACUUGCAACAGCAGCCAAAAAACCUUGACAUUAAGC
..(((..((.((((.(((.....)))))))...........................................(((((..........))))).......))..)))....... (-12.88 = -13.68 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:13 2006