Locus 539

Sequence ID	X_DroMel_CAF1
Location	1,546,165 – 1,546,258
Length	93
Max. P	0.976502

overview

Window 0

Location	1,546,165 – 1,546,258
Length	93
Sequences	6
Columns	104
Reading direction	forward
Mean pairwise identity	82.97
Mean single sequence MFE	-34.37
Consensus MFE	-28.38
Energy contribution	-29.96
Covariance contribution	1.58
Combinations/Pair	1.04
Mean z-score	-4.40
Structure conservation index	0.83
SVM decision value	1.77
SVM RNA-class probability	0.976502
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1546165 93 + 22224390
------CUUGUGCCA-CAAUUGUCCAUGUGGGAGUCAACGCUUUACUGUUGCCACCCAUUUGGCCACCAAACAAUCCUUGACUCGCUCAUGGACA----CCAAU
------.........-....((((((((.(.(((((((.........((.((((......)))).))..........))))))).).))))))))----..... ( -29.91)
>DroSec_CAF1 8546 93 + 1
------CUUGUGCUC-CACUUGUCCAUGUGGGAGUCAACGCUUUACUGUGGCCACCCAUUUGGCCACCAAACAACCCUUGACUCGCUCAUGGACA----CCAAU
------.........-....((((((((.(.(((((((.........(((((((......)))))))..........))))))).).))))))))----..... ( -36.41)
>DroSim_CAF1 9565 93 + 1
------CUUGUGCUC-CACUUGUCCAUGUGGGAGUCAACGCUUUACUGUAGCCACCCAUUUGGCCACCAAACAACCCUUGACUCGCUCAUGGACA----CCAAU
------.........-....((((((((.(.(((((((.........((.((((......)))).))..........))))))).).))))))))----..... ( -29.91)
>DroEre_CAF1 10103 93 + 1
------CUUGUGUCC-CACUUGUCCAUGUGGGAGUCAACGCUUUACUGUGGCCACCCAGUUGGCCAAUCAACAAUCCUUGACUCGCUCAUGGACA----CCAAU
------.........-....((((((((.(.(((((((..........((((((......))))))...........))))))).).))))))))----..... ( -34.50)
>DroYak_CAF1 8749 90 + 1
------CUUGUGUCC-CACUUGUCCAUGUGGGAGUCAACGCUUUACCGUGGCCACCCAG---GCCAAUCAACAAUCCUUGACUCGCUCAUGGACA----CCAAU
------.........-....((((((((.(.(((((((..........(((((.....)---))))...........))))))).).))))))))----..... ( -33.50)
>DroPer_CAF1 12688 104 + 1
AUUCCGCUUGUCCGCGUGCAUGUCCAUGUGGGAGUCAACGCUUUAGAGUGGAGGAAGUGGAGGCUCCCCAACGAUCCUUGACUCGCUCAUGGACAUGACCCACU
....(((......)))..((((((((((.(.(((((..((((....))))(((((..(((.(....))))....)))))))))).).))))))))))....... ( -42.00)
>consensus
______CUUGUGCCC_CACUUGUCCAUGUGGGAGUCAACGCUUUACUGUGGCCACCCAGUUGGCCACCAAACAAUCCUUGACUCGCUCAUGGACA____CCAAU
....................((((((((.(.(((((((.........(((((((......)))))))..........))))))).).))))))))......... (-28.38 = -29.96 +   1.58)

alignment

secondary structure

dotplot

Window 1

Location	1,546,165 – 1,546,258
Length	93
Sequences	6
Columns	104
Reading direction	reverse
Mean pairwise identity	82.97
Mean single sequence MFE	-36.62
Consensus MFE	-29.87
Energy contribution	-31.62
Covariance contribution	1.75
Combinations/Pair	1.04
Mean z-score	-3.27
Structure conservation index	0.82
SVM decision value	1.47
SVM RNA-class probability	0.956538
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1546165 93 - 22224390
AUUGG----UGUCCAUGAGCGAGUCAAGGAUUGUUUGGUGGCCAAAUGGGUGGCAACAGUAAAGCGUUGACUCCCACAUGGACAAUUG-UGGCACAAG------
.....----((((((((.(.(((((((.(.....(((...((((......))))..))).....).))))))).).))))))))....-.........------ ( -32.90)
>DroSec_CAF1 8546 93 - 1
AUUGG----UGUCCAUGAGCGAGUCAAGGGUUGUUUGGUGGCCAAAUGGGUGGCCACAGUAAAGCGUUGACUCCCACAUGGACAAGUG-GAGCACAAG------
.....----((((((((.(.(((((((.(.((.....(((((((......)))))))....)).).))))))).).)))))))).(((-...)))...------ ( -40.30)
>DroSim_CAF1 9565 93 - 1
AUUGG----UGUCCAUGAGCGAGUCAAGGGUUGUUUGGUGGCCAAAUGGGUGGCUACAGUAAAGCGUUGACUCCCACAUGGACAAGUG-GAGCACAAG------
.....----((((((((.(.(((((((.(.((.....(((((((......)))))))....)).).))))))).).)))))))).(((-...)))...------ ( -38.00)
>DroEre_CAF1 10103 93 - 1
AUUGG----UGUCCAUGAGCGAGUCAAGGAUUGUUGAUUGGCCAACUGGGUGGCCACAGUAAAGCGUUGACUCCCACAUGGACAAGUG-GGACACAAG------
.....----((((((((.(.(((((((.(....(((..((((((......))))))...)))..).))))))).).)))))))).(((-...)))...------ ( -35.40)
>DroYak_CAF1 8749 90 - 1
AUUGG----UGUCCAUGAGCGAGUCAAGGAUUGUUGAUUGGC---CUGGGUGGCCACGGUAAAGCGUUGACUCCCACAUGGACAAGUG-GGACACAAG------
.....----((((((((.(.(((((((.(.(((..(..((((---(.....))))))..)))..).))))))).).)))))))).(((-...)))...------ ( -34.80)
>DroPer_CAF1 12688 104 - 1
AGUGGGUCAUGUCCAUGAGCGAGUCAAGGAUCGUUGGGGAGCCUCCACUUCCUCCACUCUAAAGCGUUGACUCCCACAUGGACAUGCACGCGGACAAGCGGAAU
.....(.((((((((((.(.(((((((.(...((.((((((.......)))))).)).......).))))))).).))))))))))).(((......))).... ( -38.30)
>consensus
AUUGG____UGUCCAUGAGCGAGUCAAGGAUUGUUGGGUGGCCAAAUGGGUGGCCACAGUAAAGCGUUGACUCCCACAUGGACAAGUG_GGGCACAAG______
.........((((((((.(.(((((((.(.((.....(((((((......)))))))....)).).))))))).).)))))))).................... (-29.87 = -31.62 +   1.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:16 2006