Locus 1964

Sequence ID 2L_DroMel_CAF1
Location 5,322,823 – 5,322,940
Length 117
Max. P 0.982750
window3179

overview

Window 9

Location 5,322,823 – 5,322,940
Length 117
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 70.03
Mean single sequence MFE -41.77
Consensus MFE -28.45
Energy contribution -30.63
Covariance contribution 2.18
Combinations/Pair 1.20
Mean z-score -1.55
Structure conservation index 0.68
SVM decision value 1.92
SVM RNA-class probability 0.982750
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5322823 117 + 22407834
CGAGAGUUGACUGCCGCCUGAUUGUAAUCUGGUGGUGGAGCUGCAGGUACAUGUUGAUUGGCUG---GCAUGAGCUGUCCAGCCAUUUCGCUGGGAGCAGUGGGUCCAGGUGUUGCCGCA
....((((..(..(((((.(((....))).)))))..)))))((.(((((((.(.(((((((((---(((.....)).)))))))..((((((....))))))))).).))).)))))). ( -46.50)
>DroSec_CAF1 98389 120 + 1
CGAGAAUUGACUGCCGCCUGAUUGUAAUCUGGUGGUGGAGCUGCAGGUACAUGUUGAUUGGAUGGCGGCAUGAGCUGUCCAGCCAUUUCGCUGGGAGCAGUGGGUCCAGGUGUGGCCGCA
..........(..(((((.(((....))).)))))..)....((.(((((((.(.((((((.(((((((....)))).))).)))..((((((....))))))))).).)))).))))). ( -45.00)
>DroWil_CAF1 81497 90 + 1
CGUGAAUUGGCCGCCGCCUGAUUAUAGUCUGGCGGUGGCACUGCAGGUACAUGAUGUUG---------------------------UUCCGUGGUAGCAG--GAUGAUGAUGUUGUUGC-
.........(((((((((.(((....))).)))))))))((..(.((.(((......))---------------------------).)))..))(((((--.((....)).)))))..- ( -33.80)
>consensus
CGAGAAUUGACUGCCGCCUGAUUGUAAUCUGGUGGUGGAGCUGCAGGUACAUGUUGAUUGG_UG___GCAUGAGCUGUCCAGCCAUUUCGCUGGGAGCAGUGGGUCCAGGUGUUGCCGCA
..........((((((((.(((....))).))))))))....((.(((((((.(.((((((((((((((....)))).)))))))..((((((....))))))))).).)))).))))). (-28.45 = -30.63 +   2.18)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:07 2006