Locus 7772

Sequence ID	3L_DroMel_CAF1
Location	20,735,786 – 20,735,986
Length	200
Max. P	0.916966

overview

Window 5

Location	20,735,786 – 20,735,906
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.75
Mean single sequence MFE	-33.97
Consensus MFE	-28.78
Energy contribution	-29.38
Covariance contribution	0.60
Combinations/Pair	1.06
Mean z-score	-1.65
Structure conservation index	0.85
SVM decision value	1.11
SVM RNA-class probability	0.916966
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20735786 120 + 23771897
AAGCAGAAGUAUCGACUAUCCCAGGCGGAUGAGAUGAUGCUUGACAAUACAAACUUCUUGGCCCACGCCAGACUAGGCGACGAAACGCAGUCGAGAAAUACGUCGAAGAACUCGACAAGA
......((((((((.((((((.....)))).)).))))))))............((((((((....))).((((..(((......))))))))))))....(((((.....))))).... ( -32.40)
>DroSec_CAF1 11246 120 + 1
AAGCAAAAGUAUCGACUAUCCCAGGCGGAUGAGAUGAUGCUGGACAAUACAAACUUCUUGGCCCAUGCCAGACUAGGCGACGAAACGCAGUCGAGAAAUACGUCGAAGAACUCGACGAGA
.......(((((((.((((((.....)))).)).))))))).............((((((((....))).((((..(((......))))))))))))...((((((.....))))))... ( -33.30)
>DroSim_CAF1 14376 120 + 1
AAGCAGAAGUAUCGACUAUCCCAGGCGGAUGAGAUGAUGCUUGACAAUACAAACUUCUUGGCCCAUGCCAGACUAGGCGACGAAACGCAGUCGAGAAAUACGUCGAAGAACUCGACGAGA
......((((((((.((((((.....)))).)).))))))))............((((((((....))).((((..(((......))))))))))))...((((((.....))))))... ( -34.30)
>DroEre_CAF1 12996 120 + 1
AAGCCAAUGUAUAGACUGUCCCAAGCGGAUGAGGUGAUGCUUAACAAUACAAACUUCUUGGCUCAUGCCAGACUAGGCGACGAAACUCAGUCGAGAAAUACGUCAAAGAACUCGACGAGG
..(((...((((...((((((.....)))).))...)))).................(((((....)))))....))).......(((.((((((...............))))))))). ( -29.66)
>DroYak_CAF1 13060 120 + 1
AAGCAAAAGUAUCGACUGUCCCAGGCGGAUGAGAUGAUGCUUGACAAUACCAACUUCUUGGCUCAUGCCAGAUUGGGCGACGAAACCCAGUCGAGAAAUACGUCGAAAAACUCGACGAGG
......((((((((.((((((.....)))).)).)))))))).......((...((((((((....))).(((((((........))))))))))))...((((((.....)))))).)) ( -40.20)
>consensus
AAGCAAAAGUAUCGACUAUCCCAGGCGGAUGAGAUGAUGCUUGACAAUACAAACUUCUUGGCCCAUGCCAGACUAGGCGACGAAACGCAGUCGAGAAAUACGUCGAAGAACUCGACGAGA
......((((((((.((((((.....)))).)).))))))))............((((((((...((((......))))..(.....).))))))))...((((((.....))))))... (-28.78 = -29.38 +   0.60)

alignment

secondary structure

dotplot

Window 6

Location	20,735,866 – 20,735,986
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.08
Mean single sequence MFE	-35.49
Consensus MFE	-29.75
Energy contribution	-29.95
Covariance contribution	0.20
Combinations/Pair	1.15
Mean z-score	-1.51
Structure conservation index	0.84
SVM decision value	0.64
SVM RNA-class probability	0.808394
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20735866 120 - 23771897
GAACUCGGAAUGGGUUGAAAGUCCUGACUUAACGUAGGAUAUUCCAAAUUCAGUUCCGAGGUUUCGCAAGUUGUCUCCCUUCUUGUCGAGUUCUUCGACGUAUUUCUCGACUGCGUUUCG
(((((((((((((((((((.((((((........)))))).)))..)))))).)))))))....((((.((((..........(((((((...))))))).......)))))))).))). ( -35.93)
>DroSec_CAF1 11326 120 - 1
GAACUCGGAAUGGGUUGAAAGUCCUGACUUAUCGUAGGAUAUUCCAAAUUCAGUUCCGAGGUUUCGCAAGUUGUCUCCCUUCUCGUCGAGUUCUUCGACGUAUUUCUCGACUGCGUUUCG
(((((((((((((((((((.((((((........)))))).)))..)))))).)))))))....((((.((((..........(((((((...))))))).......)))))))).))). ( -37.63)
>DroSim_CAF1 14456 120 - 1
GAACUCGGAAUGGGUUGAAAGUCCUGACUUAUCGUAGGAUAUUCCAAAUUCAGUUCCGAGGUUUCGCAAGUUGUCUCCCUUCUCGUCGAGUUCUUCGACGUAUUUCUCGACUGCGUUUCG
(((((((((((((((((((.((((((........)))))).)))..)))))).)))))))....((((.((((..........(((((((...))))))).......)))))))).))). ( -37.63)
>DroEre_CAF1 13076 120 - 1
GAACUCGGAAUGGGUUCAAAGUCCUGACUCAUCGUAGGGUAUUCCAAAUUCAAUUCCGGGUUUUCGUAAGUAGUCUCCCUCCUCGUCGAGUUCUUUGACGUAUUUCUCGACUGAGUUUCG
((((((((((((((((...((((((.((.....)).))).)))...))))).))))))))))).((....(((((........(((((((...)))))))........))))).....)) ( -29.39)
>DroYak_CAF1 13140 120 - 1
GAACUCGGAAUCGGUGGAAAGUCCUGACUUAGCGUAGGAUAUUCCAAAUUCAAUUCCGGGUUUUCGUAAGUGGUCUCCCUCCUCGUCGAGUUUUUCGACGUAUUUCUCGACUGGGUUUCG
(((((((((((.(((((((.((((((........)))))).)))))...)).))))))))))).................(((.((((((...............)))))).)))..... ( -36.86)
>consensus
GAACUCGGAAUGGGUUGAAAGUCCUGACUUAUCGUAGGAUAUUCCAAAUUCAGUUCCGAGGUUUCGCAAGUUGUCUCCCUUCUCGUCGAGUUCUUCGACGUAUUUCUCGACUGCGUUUCG
(((((((((((((((((((.((((((........)))))).)))..))))).))))))))....((((.((((..........(((((((...))))))).......)))))))).))). (-29.75 = -29.95 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:56:36 2006