Locus 3706

Sequence ID 2R_DroMel_CAF1
Location 12,299,804 – 12,299,916
Length 112
Max. P 0.793221
window6022

overview

Window 2

Location 12,299,804 – 12,299,916
Length 112
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 84.22
Mean single sequence MFE -30.52
Consensus MFE -22.22
Energy contribution -22.30
Covariance contribution 0.08
Combinations/Pair 1.08
Mean z-score -1.94
Structure conservation index 0.73
SVM decision value 0.59
SVM RNA-class probability 0.793221
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12299804 112 + 20766785
GACUGGCUGGAUGCUCACCAAGUGACCCACUUUGGUGGCUCACAUGUGCCAUAGAUCGCAU-GUACA---UAUGUAUGUAUGUACA--UGUAUAAGCAGCUCAUGAAACAAAUACAAA
....((((((((.(((((...((((.((((....)))).))))..)))....)))))((((-(((((---(((....)))))))))--))).....)))))................. ( -34.60)
>DroSec_CAF1 11671 100 + 1
GGCUGGCUGGAUGCUCACCAAGUGACCCACUUUGGUGGCUCACAUGUGCCGUGGAUCGUAU-GUACA---U------------ACA--UAUAUAAGCAGCUCAUGGAACAAAUACAAA
((..(((.....)))..))..((((.((((....)))).)))).(((.((((((....(((-(((..---.------------...--)))))).....).))))).)))........ ( -27.50)
>DroSim_CAF1 10171 100 + 1
GGCUGGCUGGAUGCUCACCAAGUGACCCACUUUGGUGGCUCACAUGUGCCGUGGAUCGUAU-GUACA---U------------ACA--UAUAUAAGCAGCUCAUGGAACAAAUACAAA
((..(((.....)))..))..((((.((((....)))).)))).(((.((((((....(((-(((..---.------------...--)))))).....).))))).)))........ ( -27.50)
>DroEre_CAF1 11983 99 + 1
A----GCUGGAUGCUCACCAAGUGACCCACUUUGGUGGCUCACAUGUGCCGUGGAUCGCAUGGUAC-----------AU----ACGUAUGUAUAAUCAGCUCAUGGAACAAAUACAAA
(----(((((((((..((...((((.((((....)))).))))((((((((((.....))))))))-----------))----..))..))))..))))))................. ( -33.80)
>DroYak_CAF1 11335 114 + 1
GGCUGGCUGGAUGCUCACCAAGUGACCCACUUUGGUGGCUCACAUGUGCCGUGGAUCGCAUUGUACACACUACAUACAU----AUGUACAUAUAAUCAGCUCAUGGAACAAAUACAAA
((..(((.....)))..))..((((.((((....)))).)))).(((.(((((..(.(.((((((.....(((((....----)))))..))))))).)..))))).)))........ ( -29.20)
>consensus
GGCUGGCUGGAUGCUCACCAAGUGACCCACUUUGGUGGCUCACAUGUGCCGUGGAUCGCAU_GUACA___U_______U____ACA__UAUAUAAGCAGCUCAUGGAACAAAUACAAA
....(((((((.((.(((((((((...))).))))))))))....((((.(((.....))).))))..............................)))))................. (-22.22 = -22.30 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:21 2006