Locus 1477

Sequence ID	3L_DroMel_CAF1
Location	4,306,463 – 4,306,583
Length	120
Max. P	0.872546

overview

Window 8

Location	4,306,463 – 4,306,583
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	97.78
Mean single sequence MFE	-31.20
Consensus MFE	-29.97
Energy contribution	-30.63
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-1.75
Structure conservation index	0.96
SVM decision value	0.42
SVM RNA-class probability	0.727375
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4306463 120 + 23771897
UGUGGUUUACCAAUAUACAGCGGUAUAUCAUAUUAAAGUAUAAAUAAAUGUAUUGCAAAGUGGCGUCAUUGCCGCCCGGCUUUGCAUUGACUUAAGCCUUAAUGUUGUGAACUUAAUGGU
...(((((((..((((((....)))))).(((((((.((.(((...((((((..((...((((((....))))))...))..))))))...))).)).))))))).)))))))....... ( -32.00)
>DroSim_CAF1 32675 120 + 1
UGUGGUUUACCAAUAUACAGCGGUAUAUCAUAUUAAAGUAUAAAUAAAUGUAUUGCAAAGUGGCGUCGUUGCCGCCCGGCUUUGCAUUGACUUAAGCCUUAAUGUUGUGAACUUAAUGGU
...(((((((..((((((....)))))).(((((((.((.(((...((((((..((...((((((....))))))...))..))))))...))).)).))))))).)))))))....... ( -32.00)
>DroYak_CAF1 30830 120 + 1
UGUGGUUUACCAAUAUACAGCGGUAUAUCAUAUUAAUGUAUAAAUAAAUGUAUUGCAAAGUGGCGUCGUUGCCGCCCGGCUUUGCUCUGACUUAAGCCUUAAUGUUGUGAACUUAAUGGU
...(((((((.(((((...(((((((((..((((........)))).)))))))))...((((((....))))))..(((((...........)))))...))))))))))))....... ( -29.60)
>consensus
UGUGGUUUACCAAUAUACAGCGGUAUAUCAUAUUAAAGUAUAAAUAAAUGUAUUGCAAAGUGGCGUCGUUGCCGCCCGGCUUUGCAUUGACUUAAGCCUUAAUGUUGUGAACUUAAUGGU
...(((((((..((((((....)))))).(((((((.((.(((...((((((..((...((((((....))))))...))..))))))...))).)).))))))).)))))))....... (-29.97 = -30.63 +   0.67)

alignment

secondary structure

dotplot

Window 9

Location	4,306,463 – 4,306,583
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	97.78
Mean single sequence MFE	-26.37
Consensus MFE	-25.05
Energy contribution	-25.50
Covariance contribution	0.45
Combinations/Pair	1.03
Mean z-score	-2.10
Structure conservation index	0.95
SVM decision value	0.88
SVM RNA-class probability	0.872546
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4306463 120 - 23771897
ACCAUUAAGUUCACAACAUUAAGGCUUAAGUCAAUGCAAAGCCGGGCGGCAAUGACGCCACUUUGCAAUACAUUUAUUUAUACUUUAAUAUGAUAUACCGCUGUAUAUUGGUAAACCACA
(((..............(((((((..(((((.(((((((((...((((.......)))).))))))).....)).)))))..)))))))..(((((((....))))))))))........ ( -27.20)
>DroSim_CAF1 32675 120 - 1
ACCAUUAAGUUCACAACAUUAAGGCUUAAGUCAAUGCAAAGCCGGGCGGCAACGACGCCACUUUGCAAUACAUUUAUUUAUACUUUAAUAUGAUAUACCGCUGUAUAUUGGUAAACCACA
(((..............(((((((..(((((.(((((((((...((((.......)))).))))))).....)).)))))..)))))))..(((((((....))))))))))........ ( -27.20)
>DroYak_CAF1 30830 120 - 1
ACCAUUAAGUUCACAACAUUAAGGCUUAAGUCAGAGCAAAGCCGGGCGGCAACGACGCCACUUUGCAAUACAUUUAUUUAUACAUUAAUAUGAUAUACCGCUGUAUAUUGGUAAACCACA
(((..............((((((((....)))...((((((...((((.......)))).))))))..................)))))..(((((((....))))))))))........ ( -24.70)
>consensus
ACCAUUAAGUUCACAACAUUAAGGCUUAAGUCAAUGCAAAGCCGGGCGGCAACGACGCCACUUUGCAAUACAUUUAUUUAUACUUUAAUAUGAUAUACCGCUGUAUAUUGGUAAACCACA
(((..............(((((((..(((((.(((((((((...((((.......)))).))))))).....)).)))))..)))))))..(((((((....))))))))))........ (-25.05 = -25.50 +   0.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:40 2006