Locus 7391

Sequence ID	2L_DroMel_CAF1
Location	20,561,201 – 20,561,373
Length	172
Max. P	0.915053

overview

Window 1

Location	20,561,201 – 20,561,294
Length	93
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	79.33
Mean single sequence MFE	-30.12
Consensus MFE	-17.41
Energy contribution	-17.62
Covariance contribution	0.21
Combinations/Pair	1.17
Mean z-score	-1.62
Structure conservation index	0.58
SVM decision value	-0.01
SVM RNA-class probability	0.530942
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20561201 93 + 22407834
GUGGUCUGUGCCCUGUCCAGGUGUUCCGGAGCCUGG-ACUCCGAGUCCCUGCU----------------CCCUCGUCCUGAGCCACAAAUCAACAUUUGACUUCUGCAUA
.((((.((((....(..((((((....(((((..((-((.....))))..)))----------------))..)).))))..))))).)))).................. ( -27.70)
>DroSec_CAF1 83507 93 + 1
GUGGUCUCUGCCCUGUCCAGGUGUUCCGGAGCCUGG-ACUCCGAGUCCCUGCU----------------CUCUCGUCCUGGGCUACAAAUCAACAUUUGACUUCUGCAUA
(..(..........(((((((((....(((((..((-((.....))))..)))----------------))..)).)))))))..(((((....)))))....)..)... ( -29.00)
>DroSim_CAF1 84232 93 + 1
GUGGUCUCUGCCCUGUCCAGGUGUUCCGGAGCCUGG-ACUCCGACUCCCUGCU----------------CCCUCGUCCUGGGCCACAAAUCAACAUUUGACUUCUGCAUA
(..(..........(((((((((....(((((..((-(.......)))..)))----------------))..)).)))))))..(((((....)))))....)..)... ( -26.50)
>DroEre_CAF1 75623 108 + 1
GUGGUCUCUGCCCUGUCCAGGUGUUCCGGAGCCUGG-ACUCCGAGUCCUGGCUCCUCAGCUCCACAGCUCC-CCGUCCUGGGCCACAAAUCAACAUUUGACUUCUGCAUA
(..(..........(((((((((....((((((.((-((.....)))).))))))..((((....))))..-.)).)))))))..(((((....)))))....)..)... ( -36.90)
>DroYak_CAF1 77761 108 + 1
GUGGUCUCUGC-CUGUCCAGGUGUUCCGCAGCCUGG-ACUCCAAGUCCUGGCUCCGCAGCUCCGCAGCUCCCCCGUCCUGGGCCACAAAUCAACAUUUGACUUCUGCAUA
.(((.(.....-..).)))((.(((.((.((((.((-((.....)))).)))).)).))).))((((....(((.....)))...(((((....)))))....))))... ( -33.30)
>DroAna_CAF1 76162 78 + 1
GUGGUCCCUG----GUCCAGGUGCUGCAGAUUCUGGCACUC----------------------------CUCUGGUCCUGGGCCACAAAUCAACAUUUGACUUUUGCAUA
(((((((..(----(.(((((((((.........)))))..----------------------------..)))).)).)))))))........................ ( -27.30)
>consensus
GUGGUCUCUGCCCUGUCCAGGUGUUCCGGAGCCUGG_ACUCCGAGUCCCUGCU________________CCCUCGUCCUGGGCCACAAAUCAACAUUUGACUUCUGCAUA
(((((((.......((((((((........)))))).))....(((....)))..........................)))))))........................ (-17.41 = -17.62 +   0.21)

alignment

secondary structure

dotplot

Window 2

Location	20,561,254 – 20,561,373
Length	119
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	93.04
Mean single sequence MFE	-32.42
Consensus MFE	-28.78
Energy contribution	-29.03
Covariance contribution	0.25
Combinations/Pair	1.10
Mean z-score	-1.71
Structure conservation index	0.89
SVM decision value	1.10
SVM RNA-class probability	0.915053
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20561254 119 - 22407834
GGUGCACAAU-UUGCAGCUGCAAACGAAAGCGGGAAAAUUACUUUUCUUCUUUUCAGCAAUUUUGUUGCUUCUUGCAAUUUAUGCAGAAGUCAAAUGUUGAUUUGUGGCUCAGGACGAGG
.........(-(((.(((..((((..((((.((((((.....)))))).))))((((((..((((..((((((.(((.....)))))))))))))))))))))))..)))))))...... ( -31.60)
>DroPse_CAF1 129585 113 - 1
GGUGC-------UGCAGCUGCAAACGAAAGCGAGAAAAUUACUUUUCUUCUUUUCAGCAAUUUUGUUGCUUCUUGCAAUUUAUGCAAAAGUCAAAUGUUGAUUUGUGGCCCAGGACCACA
(((.(-------((..((..((((..((((.(((((((....)))))))))))((((((..((((..((((.(((((.....)))))))))))))))))))))))..)).))).)))... ( -35.00)
>DroSec_CAF1 83560 120 - 1
GGUGCACAAUUUUGCAGCUGCAAACGAAAGCGGGAAAAUUACUUUUCUUCUUUUCAGCAAUUUUGUUGCUUCUUGCAAUUUAUGCAGAAGUCAAAUGUUGAUUUGUAGCCCAGGACGAGA
((((((......))))((((((((..((((.((((((.....)))))).))))((((((..((((..((((((.(((.....)))))))))))))))))))))))))))))......... ( -33.50)
>DroEre_CAF1 75692 119 - 1
GGUGCACAAUUUUGCAGCUGCAAACGAAAGCGGGAAAAUUACUUUUCUUCUUUUCAGCAAUUUUGUUGCUUCUUGCAAUUUAUGCAGAAGUCAAAUGUUGAUUUGUGGCCCAGGACGG-G
((((((......))))((..((((..((((.((((((.....)))))).))))((((((..((((..((((((.(((.....)))))))))))))))))))))))..)))).......-. ( -32.30)
>DroYak_CAF1 77829 120 - 1
GGUGCGCAGUUUUGCAGCUGCAAACGAAAGCGGGAAAAUUACUUUUCUUCUCUUCAGCAAUUUUGUUGCUUCUUGCAAUUUAUGCAGAAGUCAAAUGUUGAUUUGUGGCCCAGGACGGGG
((.(((((((......)))))..(((((((.((((((.....)))))).))..((((((..((((..((((((.(((.....)))))))))))))))))))))))).))))......... ( -32.40)
>DroAna_CAF1 76200 118 - 1
GUUGCAC--UUCUGCAGCUGCAAACGAAAGCGAGAAAAUUACUUUUCUUCUUUUCAGCAAUUUUGUUGCUUCUUGCAAUUUAUGCAAAAGUCAAAUGUUGAUUUGUGGCCCAGGACCAGA
.......--(((((..((..((((..((((.(((((((....)))))))))))((((((..((((..((((.(((((.....)))))))))))))))))))))))..)).)))))..... ( -29.70)
>consensus
GGUGCACAAUUUUGCAGCUGCAAACGAAAGCGGGAAAAUUACUUUUCUUCUUUUCAGCAAUUUUGUUGCUUCUUGCAAUUUAUGCAGAAGUCAAAUGUUGAUUUGUGGCCCAGGACGAGA
((((((......))))((((((((.(((((..((((((....))))))..)))))..((((....((((((((.(((.....)))))))).)))..)))).))))))))))......... (-28.78 = -29.03 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:33 2006