Locus 3538

Sequence ID 2R_DroMel_CAF1
Location 11,829,078 – 11,829,190
Length 112
Max. P 0.820757
window5764

overview

Window 4

Location 11,829,078 – 11,829,190
Length 112
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 76.91
Mean single sequence MFE -38.57
Consensus MFE -27.80
Energy contribution -27.61
Covariance contribution -0.19
Combinations/Pair 1.24
Mean z-score -1.28
Structure conservation index 0.72
SVM decision value 0.68
SVM RNA-class probability 0.820757
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11829078 112 + 20766785
GUGGGCGAGUGGACCAAUCGCUUGUACCGCUACUUUGAGCGGGAGCAGCAAAAGCUGCA-----GCAAAGUGGCUCCUCGCAAGAGAUUCCCCAACACAUGCACGCCAUUCCCACGC
(((((..(((((.....((((((((.(((((......)))))..(((((....))))).-----)).))))))...(((....)))...................)))))))))).. ( -41.30)
>DroPse_CAF1 17690 100 + 1
GUGGGCGAGUGGACCAACCGCCUCUACCGCUACUUCGAGCGCGAGCAGCAGAAGCUGCACAAGAGCGAAGUGG-----------------GCCAGCACAUGCACGCCAUUCCCACGC
(((((((.(((((.........))))))))(((((((..(..(.(((((....))))).)..)..)))))))(-----------------((..((....))..)))....)))).. ( -38.40)
>DroGri_CAF1 47712 100 + 1
GUGGGCGAAUGGACGAAUCGACUAUAUCGAUACUUUGAGCGUGAGCAGCAGAAGCUGCACAAGGGCGACGUGA-----------------AUCAGCACAUGCAUGCCAUUCCAACGC
(((...((((((.((.(((((.....))))).......(((((.(((((....)))))......((((.....-----------------.)).)).))))).))))))))...))) ( -29.90)
>DroYak_CAF1 19850 112 + 1
GUGGGCGAGUGGACCAAUCGCCUGUACCGCUACUUUGAGCGGGAGCAGCAAAAGCUGCA-----GCAAAGUGGCUCCUCGCAGGAUAUUCCCCAGCACAUGCACGCCAUUCCCACGC
(((((((((..(.(((...((.....(((((......)))))..(((((....))))).-----))....))))..))))).((.....))...((....)).........)))).. ( -41.30)
>DroAna_CAF1 18636 112 + 1
GUCGGGGAGUGGACGAAUCGCCUGUAUCGCUAUUUUGAGCGGGAGCAGCAAAAGUUGCA-----ACAGAGUGGCUCUCAGCCGGACGUGCCCCAGCACAUGCACGCCAUUCCCACGC
..((((((((((.((..(((.(((....(((((((((.((....)).(((.....))).-----.)))))))))...))).)))..((((....)))).....)))))))))).)). ( -44.20)
>DroPer_CAF1 18499 100 + 1
GUGGGCGAGUGGACCAACCGCCUCUACCGCUACUUCGAGGCCGAGCAGCAGAAGCUGCACAAGAGCGAAGUGG-----------------GCCAGCACAUGCACGCCAUUCCCACGC
(((((((.(((((.........))))))))(((((((.......(((((....))))).......)))))))(-----------------((..((....))..)))....)))).. ( -36.34)
>consensus
GUGGGCGAGUGGACCAAUCGCCUGUACCGCUACUUUGAGCGGGAGCAGCAAAAGCUGCA_____GCAAAGUGG_________________CCCAGCACAUGCACGCCAUUCCCACGC
(((((..(((((.................((((((((.......(((((....))))).......)))))))).....................((....))...)))))))))).. (-27.80 = -27.61 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:59 2006