Locus 575

Sequence ID	3R_DroMel_CAF1
Location	2,145,259 – 2,145,357
Length	98
Max. P	0.979216

overview

Window 8

Location	2,145,259 – 2,145,357
Length	98
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	75.83
Mean single sequence MFE	-25.83
Consensus MFE	-14.17
Energy contribution	-16.37
Covariance contribution	2.20
Combinations/Pair	1.24
Mean z-score	-2.41
Structure conservation index	0.55
SVM decision value	1.83
SVM RNA-class probability	0.979216
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2145259 98 + 27905053
CAUUGGCGGCAAUAAAAAAAAAUUUAAUAUCGAUAGGGGAGUAGCUCAUAU----GAAUUCCAAGUGUGAGUUUACACCCGGGUGGCCAAUGAAAUGCGCAU
(((((((.((..((((......))))..........(((.(((((((((((----.........))))))).)))).)))..)).))))))).......... ( -28.70)
>DroSec_CAF1 287952 96 + 1
CAUUGGCGGCCAUAAAA--AAAUGGAAUAUCGAUAAGGGAGUAGCUCAUAU----AAAUUCCAAGUGUGAGUUUACACCCGGGUGGCCAAUGAAAUGCGCAU
(((((((.(((......--..((.(.....).))..(((.(((((((((((----.........))))))).)))).))).))).))))))).......... ( -32.40)
>DroSim_CAF1 303266 95 + 1
CAUUGGCGGCCAUAAA---AAAUGGAAUAUCGAUAGGGGAGUAGCUCAUAU----GAAUUCCAAGUGUGAGUUUACACCCGGGUGGCCAAUGAAAUGCGCAU
(((((((.(((.....---..((.(.....).))..(((.(((((((((((----.........))))))).)))).))).))).))))))).......... ( -32.50)
>DroEre_CAF1 292079 93 + 1
CAUUGGCGGCAAUAAAA--AAAUUGAAUAUCGACAGGGGAGUAGCUUAUAC----GUAUUCCGAGUGUG---UUACACCCAGUUGGCCAAUGAAAUGCGCAU
(((((((..((((....--..)))).....((((.(((..(((((.(((.(----(.....)).))).)---)))).))).))))))))))).......... ( -27.20)
>DroYak_CAF1 293475 99 + 1
UAUUGGCGGCAAUAAG---AAAUGGAAUAAAAAUAAUAGAAUAGCUUAUAUAUGUAUAUUCCAAGUGUGAGUUUACACCUGGGUGGCCAAUGAAAUGCGCAU
(((((((.((....((---...(((((((...(((((((......)))).)))...))))))).(((((....)))))))..)).))))))).......... ( -23.20)
>DroAna_CAF1 261685 83 + 1
C--------UAAUAAACAAGGAAUGAAUGUCUAACAGGGAGUAGUCUA----------AUCC-AUUAUGAAUUCACACCCAGGUGGCCACUAUUAUGUGCAU
.--------..............(((((.((......(((........----------.)))-.....)))))))(((....)))((.((......)))).. ( -11.00)
>consensus
CAUUGGCGGCAAUAAAA__AAAUGGAAUAUCGAUAAGGGAGUAGCUCAUAU____GAAUUCCAAGUGUGAGUUUACACCCGGGUGGCCAAUGAAAUGCGCAU
(((((((..((((........))))...........(((.(((((((((((.............))))))))).)).))).....))))))).......... (-14.17 = -16.37 +   2.20)

alignment

secondary structure

dotplot

Window 9

Location	2,145,259 – 2,145,357
Length	98
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	75.83
Mean single sequence MFE	-18.99
Consensus MFE	-12.88
Energy contribution	-14.02
Covariance contribution	1.14
Combinations/Pair	1.32
Mean z-score	-1.21
Structure conservation index	0.68
SVM decision value	0.40
SVM RNA-class probability	0.722624
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2145259 98 - 27905053
AUGCGCAUUUCAUUGGCCACCCGGGUGUAAACUCACACUUGGAAUUC----AUAUGAGCUACUCCCCUAUCGAUAUUAAAUUUUUUUUUAUUGCCGCCAAUG
..........(((((((...((((((((......)))))))).....----...................(((((..((.....))..)))))..))))))) ( -20.00)
>DroSec_CAF1 287952 96 - 1
AUGCGCAUUUCAUUGGCCACCCGGGUGUAAACUCACACUUGGAAUUU----AUAUGAGCUACUCCCUUAUCGAUAUUCCAUUU--UUUUAUGGCCGCCAAUG
..........(((((((..((.((((((......))))))(((((..----..(((((.......)))))....)))))....--......))..))))))) ( -22.40)
>DroSim_CAF1 303266 95 - 1
AUGCGCAUUUCAUUGGCCACCCGGGUGUAAACUCACACUUGGAAUUC----AUAUGAGCUACUCCCCUAUCGAUAUUCCAUUU---UUUAUGGCCGCCAAUG
..........(((((((...((((((((......)))))))).....----..........................((((..---...))))..))))))) ( -21.80)
>DroEre_CAF1 292079 93 - 1
AUGCGCAUUUCAUUGGCCAACUGGGUGUAA---CACACUCGGAAUAC----GUAUAAGCUACUCCCCUGUCGAUAUUCAAUUU--UUUUAUUGCCGCCAAUG
..........(((((((...(((((((...---..))))))).....----.................(.(((((........--...))))).)))))))) ( -19.70)
>DroYak_CAF1 293475 99 - 1
AUGCGCAUUUCAUUGGCCACCCAGGUGUAAACUCACACUUGGAAUAUACAUAUAUAAGCUAUUCUAUUAUUUUUAUUCCAUUU---CUUAUUGCCGCCAAUA
...........((((((...((((((((......)))))))).((((....))))............................---.........)))))). ( -17.60)
>DroAna_CAF1 261685 83 - 1
AUGCACAUAAUAGUGGCCACCUGGGUGUGAAUUCAUAAU-GGAU----------UAGACUACUCCCUGUUAGACAUUCAUUCCUUGUUUAUUA--------G
..........(((((..((...(((.((((((((.((((-((..----------...........)))))))).)))))).)))))..)))))--------. ( -12.42)
>consensus
AUGCGCAUUUCAUUGGCCACCCGGGUGUAAACUCACACUUGGAAUUC____AUAUAAGCUACUCCCCUAUCGAUAUUCAAUUU__UUUUAUUGCCGCCAAUG
..........(((((((...((((((((......))))))))...................................((((........))))..))))))) (-12.88 = -14.02 +   1.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:31 2006