Locus 6185

Sequence ID	2L_DroMel_CAF1
Location	17,251,213 – 17,251,325
Length	112
Max. P	0.964575

overview

Window 4

Location	17,251,213 – 17,251,303
Length	90
Sequences	6
Columns	90
Reading direction	reverse
Mean pairwise identity	88.89
Mean single sequence MFE	-17.35
Consensus MFE	-16.38
Energy contribution	-16.60
Covariance contribution	0.22
Combinations/Pair	1.11
Mean z-score	-1.68
Structure conservation index	0.94
SVM decision value	1.57
SVM RNA-class probability	0.964575
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17251213 90 - 22407834
GCCUCAUGUUUCAUUCCUUAUGCGCCAUGCCUCGUGGCUCAAUUCAAUUGCAGCCCAAUUGACGUUUGCAUAAAUAUUCCCUUUCGACUC
.................((((((((((((...)))))).....(((((((.....))))))).....))))))................. ( -18.50)
>DroPse_CAF1 161260 79 - 1
-----------CGUGCCUCAUGCCCCAUGCCUCAUGGCUCAAUUCAAUUGCAGGCCAAUUGACGUUUGCAUAAAUAUUGUAUUCCCCCUC
-----------.................(((....))).((((.....(((((((........))))))).....))))........... ( -13.10)
>DroSim_CAF1 98921 90 - 1
GCCUCAUGUUUCAUUCCUUAUGCGCCAUGCCUCGUGGCUCAAUUCAAUUGCAGCCCAAUUGACGUUUGCAUAAAUAUUCCCUUUCGACUC
.................((((((((((((...)))))).....(((((((.....))))))).....))))))................. ( -18.50)
>DroEre_CAF1 93208 90 - 1
GCCUCAUGUUUCAUUCCUUAUGCGCCAUGCCUCGUGGCUCAAUUCAAUUGCAGCUCAAUUGGCGUUUGCAUAAAUAUUCCCUUUCGACUC
.................(((((((..(((((...(((((((((...)))).))).))...))))).)))))))................. ( -19.10)
>DroYak_CAF1 94889 90 - 1
GCCUCAUGUUUCAUUCCUUAUGCGCCAUGCCUCGUGGCUCAAUUCAAUUGCAGCCCAAUUGACGUUUGCAUAAAUAUUCCCUUUCGACUC
.................((((((((((((...)))))).....(((((((.....))))))).....))))))................. ( -18.50)
>DroAna_CAF1 164395 85 - 1
GCCUCAUGUUUCAUUCCUCAUGCGCCAUGCCUCGUGGCUCAAUUCAAUUGCAGCCCAAUUGACGUUUGCAUAAAUAU-----UUCGACUC
...................((((((((((...)))))).....(((((((.....))))))).....))))......-----........ ( -16.40)
>consensus
GCCUCAUGUUUCAUUCCUUAUGCGCCAUGCCUCGUGGCUCAAUUCAAUUGCAGCCCAAUUGACGUUUGCAUAAAUAUUCCCUUUCGACUC
.................((((((((((((...)))))).....(((((((.....))))))).....))))))................. (-16.38 = -16.60 +   0.22)

alignment

secondary structure

dotplot

Window 5

Location	17,251,223 – 17,251,325
Length	102
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	96.01
Mean single sequence MFE	-22.10
Consensus MFE	-19.75
Energy contribution	-19.95
Covariance contribution	0.20
Combinations/Pair	1.04
Mean z-score	-1.29
Structure conservation index	0.89
SVM decision value	0.38
SVM RNA-class probability	0.714738
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17251223 102 - 22407834
CAUCUGAAAGUACGUGCCUCGUGCCUCAUGUUUCAUUCCUUAUGCGCCAUGCCUCGUGGCUCAAUUCAAUUGCAGCCCAAUUGACGUUUGCAUAAAUAUUCC
....(((..(((((.....))))).)))...........((((((((((((...)))))).....(((((((.....))))))).....))))))....... ( -24.10)
>DroSec_CAF1 94092 102 - 1
CGUCUGAAAGUACGUGCCUCAUGCCUCAUGUUUCAUUCCUUAUGCGCCAUGCCUCGUGGCUCAAUUCAAUUGCAGCCCAAUUGACGUUUGCAUAAAUAUUCC
.(..((((...(((((..........)))))))))..).((((((((((((...)))))).....(((((((.....))))))).....))))))....... ( -21.10)
>DroSim_CAF1 98931 102 - 1
CAUCUGAAAGUACGUGCCUCGUGCCUCAUGUUUCAUUCCUUAUGCGCCAUGCCUCGUGGCUCAAUUCAAUUGCAGCCCAAUUGACGUUUGCAUAAAUAUUCC
....(((..(((((.....))))).)))...........((((((((((((...)))))).....(((((((.....))))))).....))))))....... ( -24.10)
>DroEre_CAF1 93218 102 - 1
CAUCUGAAAGUACGUGCCUCAUGCCUCAUGUUUCAUUCCUUAUGCGCCAUGCCUCGUGGCUCAAUUCAAUUGCAGCUCAAUUGGCGUUUGCAUAAAUAUUCC
....((((...(((((..........)))))))))....(((((((..(((((...(((((((((...)))).))).))...))))).)))))))....... ( -21.60)
>DroYak_CAF1 94899 102 - 1
CAUCUGAAAGUACGUGCCGCAUGCCUCAUGUUUCAUUCCUUAUGCGCCAUGCCUCGUGGCUCAAUUCAAUUGCAGCCCAAUUGACGUUUGCAUAAAUAUUCC
....((((...(((((..(....)..)))))))))....((((((((((((...)))))).....(((((((.....))))))).....))))))....... ( -22.40)
>DroAna_CAF1 164403 98 - 1
CAUCCGA-AGUACGUGCCUCUUGCCUCAUGUUUCAUUCCUCAUGCGCCAUGCCUCGUGGCUCAAUUCAAUUGCAGCCCAAUUGACGUUUGCAUAAAUAU---
.....((-(..(((((..........)))))....)))...((((((((((...)))))).....(((((((.....))))))).....))))......--- ( -19.30)
>consensus
CAUCUGAAAGUACGUGCCUCAUGCCUCAUGUUUCAUUCCUUAUGCGCCAUGCCUCGUGGCUCAAUUCAAUUGCAGCCCAAUUGACGUUUGCAUAAAUAUUCC
.....(((.(.(((((..........)))))..).))).((((((((((((...)))))).....(((((((.....))))))).....))))))....... (-19.75 = -19.95 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:40 2006