Locus 4207

Sequence ID 3L_DroMel_CAF1
Location 12,305,287 – 12,305,387
Length 100
Max. P 0.672564
window6519

overview

Window 9

Location 12,305,287 – 12,305,387
Length 100
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 83.26
Mean single sequence MFE -30.67
Consensus MFE -19.03
Energy contribution -18.72
Covariance contribution -0.30
Combinations/Pair 1.17
Mean z-score -2.67
Structure conservation index 0.62
SVM decision value 0.30
SVM RNA-class probability 0.672564
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12305287 100 + 23771897
UGCAUGACA----GCCUCAAAAUAGGCAACACUUUUCAGCUGAGUUGCAACGAAAGUGUUGCUGGGGAAAACUUUUGCGAA-UUUCCCUCCGAAAUGCAAAGUGU
(((((..(.----...........((((((((((((..((......))...))))))))))))(((((((...........-)))))))..)..)))))...... ( -29.40)
>DroPse_CAF1 47010 102 + 1
CACACCGCACAGUGCCCCAAAGUAAGCAACACUUUUCAGCUUAGCUGCAACGAAAGUGUUGCUGG-GAAAACUUUUGCGCA-AUUCCC-CCGAAAUGCAAAGUGU
.((((.(((.(((.(((.......((((((((((((((((...))))....))))))))))))))-)...)))..)))(((-.(((..-..))).)))...)))) ( -33.51)
>DroSec_CAF1 40481 100 + 1
UGCAUGACA----GCCUCAAAAUAGGCAACACUUUUCAGCUGAGCUGCAACGAAAGUGUUGCUGGGGAAAACUUUUGCGAA-UUUCCCUCCGAAAUGCAAAGUGU
(((((..(.----...........((((((((((((((((...))))....))))))))))))(((((((...........-)))))))..)..)))))...... ( -30.20)
>DroWil_CAF1 59714 95 + 1
--CAGCGUA----GCCUCAAAGUAGGCAACAGUUUUUAGC--AGCUGCAACGAAAGUGUUGCUG--GAAAACUUUUGCAAAAUUUCUGGCCAAAAUGCAAAGUGU
--..((((.----(((..(((....((((.(((((((..(--(((.(((.(....)))).))))--))))))).))))....)))..)))....))))....... ( -29.40)
>DroMoj_CAF1 39918 98 + 1
CUCAUUGCA-GGCGCCUCGAAGUAGGCAACACUUUUUAGC--AGCUGCAACGAAAGUGUUGCUGG--CAAAC-UUUACGAA-AUUCUGGCCAAAAUGCAAAGUGU
....(((((-.(.(((..(((((.((((((((((((..((--....))...)))))))))))).)--)...(-.....)..-.))).))))....)))))..... ( -28.00)
>DroPer_CAF1 48025 102 + 1
CACACCGCACAGUGCCCCAAAGUAGGCAACACUUUUCAGCUUAGCUGCAACGAAAGUGUUGCUGG-GAAAACUUUUGCGCA-AUUCCC-CCGAAAUGCAAAGUGU
.((((.(((.(((.(((.......((((((((((((((((...))))....))))))))))))))-)...)))..)))(((-.(((..-..))).)))...)))) ( -33.51)
>consensus
CACAUCGCA____GCCUCAAAGUAGGCAACACUUUUCAGCU_AGCUGCAACGAAAGUGUUGCUGG_GAAAACUUUUGCGAA_AUUCCC_CCGAAAUGCAAAGUGU
........................((((((((((((((((...))))....)))))))))))).......((.((((((................)))))))).. (-19.03 = -18.72 +  -0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:47 2006