Locus 3361

Sequence ID	X_DroMel_CAF1
Location	8,978,703 – 8,978,847
Length	144
Max. P	0.708600

overview

Window 0

Location	8,978,703 – 8,978,810
Length	107
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	87.19
Mean single sequence MFE	-23.97
Consensus MFE	-17.78
Energy contribution	-17.23
Covariance contribution	-0.55
Combinations/Pair	1.13
Mean z-score	-2.09
Structure conservation index	0.74
SVM decision value	0.14
SVM RNA-class probability	0.601248
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8978703 107 + 22224390
-----AAUGGAAAGCAAAGCUGUAGUUACAUAAAGAUUUGAAAACUGUAAGUUUCAUAUGUGGGUAUUCACAUAUUAUGUAACAUACAU--AUUCCAUG------UACCAUAUUCAAAUU
-----.(((((((((...)))((((((((((((.....(((((........)))))(((((((....)))))))))))))))).)))..--.)))))).------............... ( -24.50)
>DroSec_CAF1 7257 119 + 1
GUUUGAAAGGAAAGCAAAGCUGUAGUUACAUAAAGAUUGUAAAAUUGUAAGUUUCAUAUGUGGGUAU-CACAUAUUAUGUAACAUAUAUAGAUUUCAUAUAUGUAUACCAUAUUCAAAUU
(((((((.((..............(((((((((.((((....))))..........((((((.....-)))))))))))))))(((((((.......)))))))...))...))))))). ( -22.30)
>DroSim_CAF1 1914 119 + 1
GUUUGAAUGGAAAGCAAAGCUGUAGUUACAUAAAGAUUUGAGAAUUGUAAGUUUCAUAUGUGGGUAU-CACAUAUUAUGUAACAUAUAUAGAUUUCAUAUAUGUAUACCAUAUGCAAAUU
(((((.((((..............(((((((((.....(((((........)))))((((((.....-)))))))))))))))(((((((.......)))))))...))))...))))). ( -25.10)
>consensus
GUUUGAAUGGAAAGCAAAGCUGUAGUUACAUAAAGAUUUGAAAAUUGUAAGUUUCAUAUGUGGGUAU_CACAUAUUAUGUAACAUAUAUAGAUUUCAUAUAUGUAUACCAUAUUCAAAUU
......(((((((((...)))((((((((((((........((((.....))))..((((((......))))))))))))))).))).....))))))...................... (-17.78 = -17.23 +  -0.55)

alignment

secondary structure

dotplot

Window 1

Location	8,978,738 – 8,978,847
Length	109
Sequences	3
Columns	117
Reading direction	reverse
Mean pairwise identity	86.86
Mean single sequence MFE	-26.17
Consensus MFE	-18.10
Energy contribution	-19.77
Covariance contribution	1.67
Combinations/Pair	1.06
Mean z-score	-2.49
Structure conservation index	0.69
SVM decision value	0.37
SVM RNA-class probability	0.708600
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8978738 109 - 22224390
CGAAUAAUAUACGAAUGGUUUUCAGGGGUGAUAGCCCAAUUUGAAUAUGGUA------CAUGGAAU--AUGUAUGUUACAUAAUAUGUGAAUACCCACAUAUGAAACUUACAGUUUU
....(((((((((((.....)))..((((....))))...............------........--..))))))))....(((((((......)))))))(((((.....))))) ( -21.00)
>DroSec_CAF1 7297 116 - 1
CUUAUAAUAUAGGAAGGGUUUUCAGGGGUGAAUACCCAAUUUGAAUAUGGUAUACAUAUAUGAAAUCUAUAUAUGUUACAUAAUAUGUG-AUACCCACAUAUGAAACUUACAAUUUU
.........((((..((((.((((....)))).))))........((((....(((((((((.....)))))))))..))))(((((((-.....)))))))....))))....... ( -25.70)
>DroSim_CAF1 1954 116 - 1
CUAAUAAUAUGCGAAGGGUUUUCAGGGGUGAAUACCCAAUUUGCAUAUGGUAUACAUAUAUGAAAUCUAUAUAUGUUACAUAAUAUGUG-AUACCCACAUAUGAAACUUACAAUUCU
......(((((((((((((.((((....)))).))))..))))))))).(((.(((((((((.....))))))))))))...(((((((-.....)))))))............... ( -31.80)
>consensus
CUAAUAAUAUACGAAGGGUUUUCAGGGGUGAAUACCCAAUUUGAAUAUGGUAUACAUAUAUGAAAUCUAUAUAUGUUACAUAAUAUGUG_AUACCCACAUAUGAAACUUACAAUUUU
...............(((((((...((((....))))........((((....(((((((((.....)))))))))..))))(((((((......))))))))))))))........ (-18.10 = -19.77 +   1.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:25 2006