Locus 1288

Sequence ID	3L_DroMel_CAF1
Location	3,728,232 – 3,728,323
Length	91
Max. P	0.794819

overview

Window 5

Location	3,728,232 – 3,728,323
Length	91
Sequences	6
Columns	92
Reading direction	forward
Mean pairwise identity	82.85
Mean single sequence MFE	-28.35
Consensus MFE	-19.43
Energy contribution	-21.22
Covariance contribution	1.78
Combinations/Pair	1.19
Mean z-score	-2.56
Structure conservation index	0.69
SVM decision value	0.60
SVM RNA-class probability	0.794819
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3728232 91 + 23771897
CCUCAAGGAUACUUCAGCAAAUGGCAUCCAUAUCGAUGGCCAUUUGCUUCAGUUAACCCAGCUGGUCCGUCUUCGCCA-ACCCGGGAUAUUA
......((((.....(((((((((((((......))).)))))))))).(((((.....)))))))))((((.((...-...)))))).... ( -26.70)
>DroVir_CAF1 160796 78 + 1
CCUCAAGGACAUUGCAGGAUGUG-CUGCCA----GAUGGCUGCUGCCUGCUGCCAGGCGUAUCAGUGCGUAUGCCACA-AC--------UUA
......((.((..(((((....(-(.(((.----...))).))..))))))))).(((((((......)))))))...-..--------... ( -28.00)
>DroSec_CAF1 123054 91 + 1
CCUCAAGGAUACUUCAGCAAAUGGCAUCCAUAUCGAUGGCCGUUUGCUUCAGUUAACCCAGCUGGUCCGUCUUCGCCA-ACCCGGGGUAUUA
.......(((((((((((((((((((((......))).))))))))))((((((.....)))))).............-....)))))))). ( -27.90)
>DroSim_CAF1 118966 91 + 1
CCUCAAGGAUACUUCAGCAAAUGGCAUCCAUAUCGAUGGCCAUUUGCUUCAGUUAACCCAGCUGGUCCGUCUUCGCCA-ACCCGGGGUAUUA
.......(((((((((((((((((((((......))).))))))))))((((((.....)))))).............-....)))))))). ( -28.30)
>DroEre_CAF1 118173 92 + 1
CCUCAAGGAUACUUCAGCAAAUGGCAUCCAUAUCGAUGGCCAUUUGCUUCAGUUAACCCAGCUGGUCCGCCUUCGCCAAACCCGGGGUAUUA
((((..((((.....(((((((((((((......))).)))))))))).(((((.....)))))))))((....)).......))))..... ( -29.60)
>DroYak_CAF1 106750 91 + 1
CCUCAAGGAUACUUCAGCAAAUGGCAUCCAUAUCGAUGGCCAUUUGCUUCAGUUAACCCAGCUGGUCCGCCUUCGCCA-ACCCGGGGUAUUA
((((..((((.....(((((((((((((......))).)))))))))).(((((.....)))))))))((....))..-....))))..... ( -29.60)
>consensus
CCUCAAGGAUACUUCAGCAAAUGGCAUCCAUAUCGAUGGCCAUUUGCUUCAGUUAACCCAGCUGGUCCGUCUUCGCCA_ACCCGGGGUAUUA
.......(((((((((((((((((((((......))).))))))))))((((((.....))))))..................)))))))). (-19.43 = -21.22 +   1.78)

alignment

secondary structure

dotplot

Window 6

Location	3,728,232 – 3,728,323
Length	91
Sequences	6
Columns	92
Reading direction	reverse
Mean pairwise identity	82.85
Mean single sequence MFE	-31.50
Consensus MFE	-20.19
Energy contribution	-21.62
Covariance contribution	1.42
Combinations/Pair	1.24
Mean z-score	-2.25
Structure conservation index	0.64
SVM decision value	0.24
SVM RNA-class probability	0.650418
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3728232 91 - 23771897
UAAUAUCCCGGGU-UGGCGAAGACGGACCAGCUGGGUUAACUGAAGCAAAUGGCCAUCGAUAUGGAUGCCAUUUGCUGAAGUAUCCUUGAGG
.......((.(((-((((.......).)))))).))...(((..((((((((((.(((......)))))))))))))..))).......... ( -32.50)
>DroVir_CAF1 160796 78 - 1
UAA--------GU-UGUGGCAUACGCACUGAUACGCCUGGCAGCAGGCAGCAGCCAUC----UGGCAG-CACAUCCUGCAAUGUCCUUGAGG
...--------..-...(((((..(((..(((..(((((....))))).((.(((...----.))).)-)..))).))).)))))....... ( -22.70)
>DroSec_CAF1 123054 91 - 1
UAAUACCCCGGGU-UGGCGAAGACGGACCAGCUGGGUUAACUGAAGCAAACGGCCAUCGAUAUGGAUGCCAUUUGCUGAAGUAUCCUUGAGG
.....((((.(((-((((.......).)))))).))...(((..((((((.(((.(((......)))))).))))))..)))........)) ( -28.40)
>DroSim_CAF1 118966 91 - 1
UAAUACCCCGGGU-UGGCGAAGACGGACCAGCUGGGUUAACUGAAGCAAAUGGCCAUCGAUAUGGAUGCCAUUUGCUGAAGUAUCCUUGAGG
.....((((.(((-((((.......).)))))).))...(((..((((((((((.(((......)))))))))))))..)))........)) ( -32.70)
>DroEre_CAF1 118173 92 - 1
UAAUACCCCGGGUUUGGCGAAGGCGGACCAGCUGGGUUAACUGAAGCAAAUGGCCAUCGAUAUGGAUGCCAUUUGCUGAAGUAUCCUUGAGG
....((((..((((((.(....)))))))....))))..(((..((((((((((.(((......)))))))))))))..))).......... ( -34.90)
>DroYak_CAF1 106750 91 - 1
UAAUACCCCGGGU-UGGCGAAGGCGGACCAGCUGGGUUAACUGAAGCAAAUGGCCAUCGAUAUGGAUGCCAUUUGCUGAAGUAUCCUUGAGG
....((((..(((-(.((....)).))))....))))..(((..((((((((((.(((......)))))))))))))..))).......... ( -37.80)
>consensus
UAAUACCCCGGGU_UGGCGAAGACGGACCAGCUGGGUUAACUGAAGCAAAUGGCCAUCGAUAUGGAUGCCAUUUGCUGAAGUAUCCUUGAGG
......(((((...((((.......).))).)))))...(((..((((((((((.(((......)))))))))))))..))).......... (-20.19 = -21.62 +   1.42)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:58 2006