Locus 484

Sequence ID	3R_DroMel_CAF1
Location	1,800,650 – 1,800,784
Length	134
Max. P	0.881959

overview

Window 1

Location	1,800,650 – 1,800,753
Length	103
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	82.05
Mean single sequence MFE	-29.48
Consensus MFE	-19.89
Energy contribution	-19.70
Covariance contribution	-0.19
Combinations/Pair	1.08
Mean z-score	-1.89
Structure conservation index	0.67
SVM decision value	0.34
SVM RNA-class probability	0.693993
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1800650 103 + 27905053
GAG-GUUUGUUCGACUGC--GAGUACCUAUCGC--AGUUGUGUGCGGCAGGAACGAUGGAUGGUUUUUUAAUUGCCAUUUCAAUUUUCGUGUUGCAACGCGUCGUUUG
((.-((.....(((((((--((.......))))--)))))..(((((((.(((.(.((((((((.........)))).)))).).))).)))))))..)).))..... ( -34.00)
>DroPse_CAF1 99682 92 + 1
GAAUGUAUG--------------UUCGUAUCAC--AGUUGUGUGCGGCAUGAACGAUGGAUGGUUUUUUAAUUGCCGUUUCAAUUUUCGUGUUGCAACGCGUCCUUUG
((((....)--------------))).......--....((((((((((((((.(.((((((((.........)))).)))).).)))))))))).))))........ ( -24.30)
>DroEre_CAF1 107368 99 + 1
GAG-GUUUGUGCGACUGC--GA----GUAUCGC--AGUUGUGUGCGGCAGGAACGAUGGAUGGUUUUUUAAUUGCCAUUUCAAUUUUCGUGUUGCAACGCGUCGUUUG
((.-((..(..(((((((--(.----....)))--)))))..)((((((.(((.(.((((((((.........)))).)))).).))).))))))...)).))..... ( -35.20)
>DroYak_CAF1 110396 97 + 1
GAC------UGCGAGUAC--GA---CGUAUCGCACAGUUGUGUGCGGCAGAAACGAUGGAUGGUUUUUUAAUUGCCAUUUCAAUUUUCGUGUUGCAACGCGUCGUUCG
...------..(((..((--((---(((..((((((....))))))((((..((((((((((((.........)))).))))....)))).))))...)))))))))) ( -30.90)
>DroAna_CAF1 101034 105 + 1
UAG--UAUGUU-GAAUGUUUUUGUACGUAUCGCACAGUUGUGUGCAGCAUGAACGAUGGAUGGUUUUUUAAUUGCCAUUUCAAUUUUCGUGUUGCAACGCGUCGUUUG
...--..((((-((((((......)))).))).)))(.(((((((((((((((.(.((((((((.........)))).)))).).)))))))))).))))).)..... ( -28.20)
>DroPer_CAF1 102284 92 + 1
GAAUGUAUG--------------UUCGUAUCAC--AGUUGUGUGCGGCAUGAACGAUGGAUGGUUUUUUAAUUGCCGUUUCAAUUUUCGUGUUGCAACGCGUCCUUUG
((((....)--------------))).......--....((((((((((((((.(.((((((((.........)))).)))).).)))))))))).))))........ ( -24.30)
>consensus
GAG_GUAUGU__GA_UGC__GA_U_CGUAUCGC__AGUUGUGUGCGGCAGGAACGAUGGAUGGUUUUUUAAUUGCCAUUUCAAUUUUCGUGUUGCAACGCGUCGUUUG
....................................(.(((((((((((.(((.(.((((((((.........)))).)))).).))).)))))).))))).)..... (-19.89 = -19.70 +  -0.19)

alignment

secondary structure

dotplot

Window 2

Location	1,800,684 – 1,800,784
Length	100
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	81.12
Mean single sequence MFE	-31.08
Consensus MFE	-22.26
Energy contribution	-22.08
Covariance contribution	-0.18
Combinations/Pair	1.24
Mean z-score	-2.22
Structure conservation index	0.72
SVM decision value	0.92
SVM RNA-class probability	0.881959
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1800684 100 + 27905053
GUGUGCGGCAGGAACGAUGGAUGGUUUUUUAAUUGCCAUUUCAAUUUUCGUGUUGCAACGCGUCGUUUGCCUAUGCCUGGGCAACUUUCGACCUCC-CA--U------U
((((((((((.(((.(.((((((((.........)))).)))).).))).)))))).))))((((.(((((((....)))))))....))))....-..--.------. ( -33.70)
>DroPse_CAF1 99705 106 + 1
GUGUGCGGCAUGAACGAUGGAUGGUUUUUUAAUUGCCGUUUCAAUUUUCGUGUUGCAACGCGUCCUUUGCCUAGGCUUGCGCAAGCUUCCACCUCG-CA--CUGGAGCU
((((((((((((((.(.((((((((.........)))).)))).).)))))))))).)))).(((..(((..(((...((....)).....))).)-))--..)))... ( -36.40)
>DroWil_CAF1 110348 97 + 1
GCAUGCGGCAUGAACGAUGGAUGGUUUUUUAAUUGCCAUUUCAAUUUUCGUUUUACAAUGCCUUUUUUUCUUCUUCUCU------CUUCUUUCCCGACUACU------U
......(((((((((((((((((((.........)))).))))....))))))....))))).................------.................------. ( -15.90)
>DroYak_CAF1 110424 100 + 1
GUGUGCGGCAGAAACGAUGGAUGGUUUUUUAAUUGCCAUUUCAAUUUUCGUGUUGCAACGCGUCGUUCGCCUAUGCCUGGGCAACCUUCGACCUCC-UA--G------C
((((((((((((((....(((((((.........)))))))....)))).)))))).))))((((...(((((....)))))......))))....-..--.------. ( -29.40)
>DroAna_CAF1 101070 101 + 1
GUGUGCAGCAUGAACGAUGGAUGGUUUUUUAAUUGCCAUUUCAAUUUUCGUGUUGCAACGCGUCGUUUGCCUAUGCUUGGGCAACCUUCGACCCCCACA--U------U
((((((((((((((.(.((((((((.........)))).)))).).)))))))))).))))((((.(((((((....)))))))....)))).......--.------. ( -37.10)
>DroPer_CAF1 102307 106 + 1
GUGUGCGGCAUGAACGAUGGAUGGUUUUUUAAUUGCCGUUUCAAUUUUCGUGUUGCAACGCGUCCUUUGCCUAUGCUUGCGCAAGCUUCCACCUCG-CA--CUGGAGCU
((((((((((((((.(.((((((((.........)))).)))).).)))))))))).)))).(((..(((...((...((....))...))....)-))--..)))... ( -34.00)
>consensus
GUGUGCGGCAUGAACGAUGGAUGGUUUUUUAAUUGCCAUUUCAAUUUUCGUGUUGCAACGCGUCGUUUGCCUAUGCUUGGGCAACCUUCGACCUCC_CA__U______U
((((((((((((((.(.((((((((.........)))).)))).).)))))))))).)))).................((....))....................... (-22.26 = -22.08 +  -0.18)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:19 2006