Locus 3342

Sequence ID 2R_DroMel_CAF1
Location 11,353,174 – 11,353,274
Length 100
Max. P 0.936994
window5466

overview

Window 6

Location 11,353,174 – 11,353,274
Length 100
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 88.31
Mean single sequence MFE -14.85
Consensus MFE -13.30
Energy contribution -12.98
Covariance contribution -0.32
Combinations/Pair 1.10
Mean z-score -1.71
Structure conservation index 0.90
SVM decision value 1.26
SVM RNA-class probability 0.936994
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11353174 100 + 20766785
UUGCAAUCAGCAGAUGCAAGCCAAGUCCCGAAAAUUGUCCGAAGAAGGGACAUAAACAAAAAAAAAAAAGGAACAGAUAUUUAUAUAUAUAAAGACAAAG
(((((.((....))))))).....(((........(((((.......)))))...........................(((((....)))))))).... ( -13.00)
>DroSec_CAF1 11244 88 + 1
UUGCAAUCAGCAGAUGCAAGCCAAGUCCCGAAAAUUGUCCGAAGAAGGGACAUAA----------AAAAGGAACAGAUAUUUAUA--UAUAAAGACAAAG
(((((.((....))))))).....(((((......(((((.......)))))...----------....)).....((((....)--)))...))).... ( -14.82)
>DroSim_CAF1 11200 88 + 1
UUGCAAUCAGCAGAUGCAAGCCAAGUCCCGAAAAUUGUCCGAAGAAGGGACAUAA----------AAAAGGAACAGAUAUUUAUA--UAUAAAGACAAAG
(((((.((....))))))).....(((((......(((((.......)))))...----------....)).....((((....)--)))...))).... ( -14.82)
>DroEre_CAF1 13525 91 + 1
UUGCAAUCAGCAGAUGCAAGCCAAGUCCCGAAAAUUGUCCGAAAAAGGGACAAAA----AAGAAA---AAGAACAGAUAUUUAUA--UAUAAAGACAAAG
(((((.((....))))))).....(((.......((((((.......))))))..----......---........((((....)--)))...))).... ( -13.80)
>DroYak_CAF1 11503 94 + 1
UUGCAAUCAGCAGAUGCAAGCCAAGUCCCGAAAAUUGUCCGAAAAAGGGACAAAA----AAUGAAAUAAGAAACAGAUAUUUAUA--UAUAGAGGCAGAG
(((((.((....)))))))(((..(((((.................)))))....----.................((((....)--)))...))).... ( -17.83)
>consensus
UUGCAAUCAGCAGAUGCAAGCCAAGUCCCGAAAAUUGUCCGAAGAAGGGACAUAA____AA__AAAAAAGGAACAGAUAUUUAUA__UAUAAAGACAAAG
(((((.((....))))))).....(((........(((((.......)))))...........................(((((....)))))))).... (-13.30 = -12.98 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:11 2006