Locus 1809

Sequence ID	2R_DroMel_CAF1
Location	6,786,811 – 6,786,909
Length	98
Max. P	0.972424

overview

Window 9

Location	6,786,811 – 6,786,909
Length	98
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	90.66
Mean single sequence MFE	-33.80
Consensus MFE	-24.53
Energy contribution	-25.41
Covariance contribution	0.88
Combinations/Pair	1.07
Mean z-score	-2.15
Structure conservation index	0.73
SVM decision value	0.45
SVM RNA-class probability	0.741827
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6786811 98 + 20766785
GUGGGUAUCAUGACCCCGCCGCUGGGAACCUCCAAAGGGGUCAAGAGUGUGGCCAAAUGUCGGCCAUUUCAUCAAUGAAGC---AUUUGUCCAUUGACAGA
....((.((((((((((.....((((....))))..))))))..((..((((((.......))))))....)).)))).))---.((((((....)))))) ( -33.10)
>DroSec_CAF1 36961 95 + 1
GUGGGUAUCAUGACCCC---GCUGGGAACCUCCAAAGGGGUCAAGAGUGUGGCCAAAUGUCGGCCAUUUCAUCAAUGAAGC---AUAUGGCCAUUGACAGA
...(((.((.(((((((---..((((....))))..))))))).)).....)))...((((((((((((((....))))..---..))))))...)))).. ( -35.90)
>DroSim_CAF1 45885 95 + 1
GUGGGUAUCAUGACCCC---GCUGGGAGCCUCCAAAGGGGUCAAGAGUGUGGCCAAAUGUCGGCCAUUUCAUCAAUGAAGC---AUUUGGCCAUUGACAGA
.......((.(((((((---..((((....))))..))))))).))((((((((((((((....((((.....))))..))---))))))))))..))... ( -37.70)
>DroEre_CAF1 39410 98 + 1
GUGGGUAUCAUGACCCC---GCCUGCAACCUCCAAAGGGGUCAAGAGUGUGGCCAAAUGUCGGCCAACUCAUCAAUGAAGACGAUGUUGGCCAUUGACUGA
...(((.((.(((((((---................))))))).)).....)))....((((((((((((.((......)).)).)))))))...)))... ( -33.29)
>DroYak_CAF1 44702 95 + 1
GUGGGCAUCAUGACCUC---GCUCGGAACCUCCAAAGGGGUCAAGAGUGUAGCCAAAUGUCGGCCAUUUCAUCAAUGAAGC---AUUCGGCCAUUGACAGA
((((.(....(((((((---....((.....))...))))))).((((((.(((.......)))...((((....))))))---))))).))))....... ( -29.00)
>consensus
GUGGGUAUCAUGACCCC___GCUGGGAACCUCCAAAGGGGUCAAGAGUGUGGCCAAAUGUCGGCCAUUUCAUCAAUGAAGC___AUUUGGCCAUUGACAGA
...(((.((.(((((((.......((.....))...))))))).)).....)))...((((((((((((((....))))).......)))))...)))).. (-24.53 = -25.41 +   0.88)

alignment

secondary structure

dotplot

Window 0

Location	6,786,811 – 6,786,909
Length	98
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	90.66
Mean single sequence MFE	-34.60
Consensus MFE	-26.24
Energy contribution	-26.52
Covariance contribution	0.28
Combinations/Pair	1.07
Mean z-score	-2.78
Structure conservation index	0.76
SVM decision value	1.69
SVM RNA-class probability	0.972424
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6786811 98 - 20766785
UCUGUCAAUGGACAAAU---GCUUCAUUGAUGAAAUGGCCGACAUUUGGCCACACUCUUGACCCCUUUGGAGGUUCCCAGCGGCGGGGUCAUGAUACCCAC
...((((((((((....---).)))))))))....(((((((...)))))))...((.(((((((.((((......))))....))))))).))....... ( -32.90)
>DroSec_CAF1 36961 95 - 1
UCUGUCAAUGGCCAUAU---GCUUCAUUGAUGAAAUGGCCGACAUUUGGCCACACUCUUGACCCCUUUGGAGGUUCCCAGC---GGGGUCAUGAUACCCAC
..(((((.((((((.((---((.(((((.....)))))..).))).))))))......(((((((.((((......)))).---))))))))))))..... ( -35.10)
>DroSim_CAF1 45885 95 - 1
UCUGUCAAUGGCCAAAU---GCUUCAUUGAUGAAAUGGCCGACAUUUGGCCACACUCUUGACCCCUUUGGAGGCUCCCAGC---GGGGUCAUGAUACCCAC
..(((((.(((((((((---((.(((((.....)))))..).))))))))))......(((((((.((((......)))).---))))))))))))..... ( -38.40)
>DroEre_CAF1 39410 98 - 1
UCAGUCAAUGGCCAACAUCGUCUUCAUUGAUGAGUUGGCCGACAUUUGGCCACACUCUUGACCCCUUUGGAGGUUGCAGGC---GGGGUCAUGAUACCCAC
...(((((((((((((.(((((......)))))))))))))....))))).....((.(((((((((((.......)))).---))))))).))....... ( -37.60)
>DroYak_CAF1 44702 95 - 1
UCUGUCAAUGGCCGAAU---GCUUCAUUGAUGAAAUGGCCGACAUUUGGCUACACUCUUGACCCCUUUGGAGGUUCCGAGC---GAGGUCAUGAUGCCCAC
...((((.(((((((((---((.(((((.....)))))..).))))))))))......((((((.(((((.....))))).---).)))))))))...... ( -29.00)
>consensus
UCUGUCAAUGGCCAAAU___GCUUCAUUGAUGAAAUGGCCGACAUUUGGCCACACUCUUGACCCCUUUGGAGGUUCCCAGC___GGGGUCAUGAUACCCAC
...((((((((............))))))))....(((((((...)))))))...((.(((((((.((((......))))....))))))).))....... (-26.24 = -26.52 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:37 2006