Locus 3775

Sequence ID	2L_DroMel_CAF1
Location	11,025,542 – 11,025,636
Length	94
Max. P	0.986794

overview

Window 9

Location	11,025,542 – 11,025,636
Length	94
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	85.60
Mean single sequence MFE	-30.80
Consensus MFE	-25.29
Energy contribution	-25.13
Covariance contribution	-0.16
Combinations/Pair	1.14
Mean z-score	-1.84
Structure conservation index	0.82
SVM decision value	0.80
SVM RNA-class probability	0.854966
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11025542 94 + 22407834
UUCCAAG-ACCGGGGAACCCAACUCGAAAGUCAAGAUCCGGACUUGGGGACCCC------GGCCUGAGCCAAAGUAAAGAGUUGGUUGGGCGAUAAA-AAAU
.......-..(((((..((((.......((((........))))))))..))))------)((((.((((((.........))))))))))......-.... ( -31.01)
>DroSec_CAF1 14076 95 + 1
UUCCAAG-CCUGGGGAACCCAACUCGAAUGUCAAGAUCCGGACUUGGGGACCCC------GGCCUGAGCCAAAGUAACGAGUUGGUUGGGCAAUAAAAAAAU
...((.(-((.((((..(((((.(((.((......)).)))..)))))..))))------))).)).(((.((.(((....))).)).)))........... ( -29.80)
>DroSim_CAF1 14345 93 + 1
UUCCAAG-CCCGGGGAACCCAACUCGAAAGUCA-GAUCCGGACUUGGGGACCCC------GGCCUGAGCCAAAGUAACGAGUUGGCUGGGCGAUAAA-AAAU
......(-(((((.....((((((((.(((((.-......)))))(((...)))------(((....))).......))))))))))))))......-.... ( -33.70)
>DroEre_CAF1 15633 91 + 1
----------UGGGGAACCCAGCUCGAGAGUCAAGAUCCGGACUUGGGGAGCCCGAGUUUGGCCUGGGCCAAAGUAACGAGUUGGCUGGGCGAUAAA-AAAU
----------.......(((((((((.((.......))))((((((((....)).(.((((((....)))))).)..))))))))))))).......-.... ( -30.60)
>DroYak_CAF1 14873 95 + 1
UGGCAAAAGCAGGGGAGCCCAACUCGAAAGUCUAGAUCCGGACUUGGAGACCCC------GGCCUGAGCCAAAGUAACGAGUUGGCUGGGCGAUAAA-AAAU
..((...(((.((....))(((((((.((((((......))))))((.....))------(((....))).......))))))))))..))......-.... ( -28.90)
>consensus
UUCCAAG_CCCGGGGAACCCAACUCGAAAGUCAAGAUCCGGACUUGGGGACCCC______GGCCUGAGCCAAAGUAACGAGUUGGCUGGGCGAUAAA_AAAU
...........((((..(((((.......(((........))))))))..)))).......((((.((((((.........))))))))))........... (-25.29 = -25.13 +  -0.16)

alignment

secondary structure

dotplot

Window 0

Location	11,025,542 – 11,025,636
Length	94
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	85.60
Mean single sequence MFE	-33.28
Consensus MFE	-24.56
Energy contribution	-25.40
Covariance contribution	0.84
Combinations/Pair	1.05
Mean z-score	-2.97
Structure conservation index	0.74
SVM decision value	2.05
SVM RNA-class probability	0.986794
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11025542 94 - 22407834
AUUU-UUUAUCGCCCAACCAACUCUUUACUUUGGCUCAGGCC------GGGGUCCCCAAGUCCGGAUCUUGACUUUCGAGUUGGGUUCCCCGGU-CUUGGAA
....-........(((.((((.........))))...(((((------((((..(((((.((.(((........))))).)))))..)))))))-))))).. ( -35.30)
>DroSec_CAF1 14076 95 - 1
AUUUUUUUAUUGCCCAACCAACUCGUUACUUUGGCUCAGGCC------GGGGUCCCCAAGUCCGGAUCUUGACAUUCGAGUUGGGUUCCCCAGG-CUUGGAA
...........(((.((..((....))..)).)))(((((((------((((..(((((.((.((((......)))))).)))))..)))).))-))))).. ( -34.20)
>DroSim_CAF1 14345 93 - 1
AUUU-UUUAUCGCCCAGCCAACUCGUUACUUUGGCUCAGGCC------GGGGUCCCCAAGUCCGGAUC-UGACUUUCGAGUUGGGUUCCCCGGG-CUUGGAA
....-........((((((((.........)))))..((.((------((((..(((((.((.(((..-.....))))).)))))..)))))).-))))).. ( -37.00)
>DroEre_CAF1 15633 91 - 1
AUUU-UUUAUCGCCCAGCCAACUCGUUACUUUGGCCCAGGCCAAACUCGGGCUCCCCAAGUCCGGAUCUUGACUCUCGAGCUGGGUUCCCCA----------
....-......(((((((......((((.((((((....)))))).(((((((.....)))))))....))))......)))))))......---------- ( -30.30)
>DroYak_CAF1 14873 95 - 1
AUUU-UUUAUCGCCCAGCCAACUCGUUACUUUGGCUCAGGCC------GGGGUCUCCAAGUCCGGAUCUAGACUUUCGAGUUGGGCUCCCCUGCUUUUGCCA
....-..........................((((..((((.------((((..(((((.((.(((........))))).)))))..)))).))))..)))) ( -29.60)
>consensus
AUUU_UUUAUCGCCCAGCCAACUCGUUACUUUGGCUCAGGCC______GGGGUCCCCAAGUCCGGAUCUUGACUUUCGAGUUGGGUUCCCCAGG_CUUGGAA
...........(((..(((((.........)))))...))).......((((..(((((.((.(((........))))).)))))..))))........... (-24.56 = -25.40 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:52 2006