Locus 928

Sequence ID 2L_DroMel_CAF1
Location 2,667,307 – 2,667,401
Length 94
Max. P 0.715463
window1496

overview

Window 6

Location 2,667,307 – 2,667,401
Length 94
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 67.23
Mean single sequence MFE -21.40
Consensus MFE -6.96
Energy contribution -6.69
Covariance contribution -0.27
Combinations/Pair 1.38
Mean z-score -1.93
Structure conservation index 0.33
SVM decision value 0.39
SVM RNA-class probability 0.715463
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2667307 94 + 22407834
AAAAAUAUGCUCGGA-AAAACGAGCA--GAGAAAAUUAGGUUGGAAAAACUACCAAUACGAUAU-GAAG---------AUA--UAGCUGUGGUGGCAAUCGAGCGAGGG
.......((((((..-....))))))--...........(((.((....((((((.....((((-....---------)))--).....))))))...)).)))..... ( -22.40)
>DroPse_CAF1 110784 100 + 1
AAAAAUGAGCUGGGAAAAAGCCACCA--GAAA-------GGGGGAAAAACUACAGAUAUGAUGCAUAAAUCGAUGGCGAUGAGCUGAUGUUGUGGCAAUCGAGCCAUGG
....((.((((.(......((((((.--....-------.))................((((......)))).))))..).)))).)).(..((((......))))..) ( -21.40)
>DroSim_CAF1 87351 94 + 1
AAAAAUAUGCUCGGA-AAAACGAGCA--GAGAAAAUUGGGUUGGAAAAACUACCGAUACGAUAU-GAAG---------AUG--AAGAUGUGGUGGCAAUCGAGCGAGGG
.......((((((..-....))))))--...........(((.((....((((((...(..(((-....---------)))--..)...))))))...)).)))..... ( -19.40)
>DroEre_CAF1 100211 87 + 1
AAAAAUAUGCUCGGAAAAAGCGAGCA--GAGAAAAU--GGGUGGAAAAACUACCGAUACGAUGC-GAAG-----------------AUGUGGUGGCAAUCGAGCAGGGG
.......((((((.......))))))--......((--.(((((.....))))).)).(..(((-...(-----------------((((....)).)))..)))..). ( -20.90)
>DroAna_CAF1 138957 99 + 1
GCAAAAAUU-UUGGA-GAAACCACCGACGAGUGGAUUAAGACGGGAAACCUACCGAUACGAUACCGAACCCG------AAU--CCGAUGCGGUGGAAAUCAAGCAGGUU
.........-...((-....((((((.....((((((.....((....))........((....))......------)))--)))...))))))...))......... ( -22.90)
>DroPer_CAF1 107470 100 + 1
AAAAAUGAGCUGGGAAAAAGCCACCA--GAAA-------GGGGGAAAAACUACAGAUAUGAUGCAUAAAUCGAUGGCGAUGAGCUGAUGUUGUGGCAAUCGAGCCAUGG
....((.((((.(......((((((.--....-------.))................((((......)))).))))..).)))).)).(..((((......))))..) ( -21.40)
>consensus
AAAAAUAUGCUCGGA_AAAACCACCA__GAGAAAAU__GGGUGGAAAAACUACCGAUACGAUAC_GAAG_________AUG__CAGAUGUGGUGGCAAUCGAGCAAGGG
........((((((......((.((..............))))......((((((..................................))))))...))))))..... ( -6.96 =  -6.69 +  -0.27)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:58 2006