Locus 293

Sequence ID	3L_DroMel_CAF1
Location	831,563 – 831,659
Length	96
Max. P	0.909022

overview

Window 0

Location	831,563 – 831,659
Length	96
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	73.47
Mean single sequence MFE	-36.12
Consensus MFE	-17.06
Energy contribution	-19.45
Covariance contribution	2.39
Combinations/Pair	1.24
Mean z-score	-1.89
Structure conservation index	0.47
SVM decision value	0.59
SVM RNA-class probability	0.791528
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 831563 96 + 23771897
GAAUUGGGUGAGUUGAGGAUGAGCCAGGCCACCGACACCGAGCACUGGAGCACCAUCCAGGCCUUGUUCGGUGAAGGAGAGC--CAAGAAGUCAACUC--------
.........(((((((((.....)).((((.((..((((((((((((((......)))))....)))))))))..)).).))--)......)))))))-------- ( -39.20)
>DroPse_CAF1 6770 105 + 1
GAGCUGUCCGAGCUGAGGGUGCGACAAUCUACAGAUUCGGAGCACUGGCAGACCAUACACGCUCUGUUCGGUGAACAG-GGCACUGGGGAGACGACUCCCCGUGCC
...((((((((((.((((((((..(((((....)))).)..)))))((....)).......))).))))))...))))-(((((.((((((....))))))))))) ( -47.30)
>DroSec_CAF1 6051 96 + 1
GAAUUGGGUGAGUUGAGGAUGAGCCAGGCCACCGACACCGAGCACUGGAGCACCAUCCAGGCCUUGUUCGGCGAUGGAGAGC--AAAGAAGUCAACUC--------
.........(((((((((.....))..(((.(((.(.((((((((((((......)))))....))))))).).))).).))--.......)))))))-------- ( -31.90)
>DroSim_CAF1 5479 95 + 1
GAAUUGGGUGAGUUGAGGAUGAGCCAGGCCACCGACACCGAGCACUGGAGCACCAUCCAGGCCUUGUUCGGUGAUGGA-AGC--AAAGGAGUCAACUC--------
.........(((((((((.....))..((..(((.((((((((((((((......)))))....))))))))).))).-.))--.......)))))))-------- ( -35.40)
>DroEre_CAF1 6898 96 + 1
GAGUUGGGAGAGUUGCGGAUAAGCCAGGCCACCGACACCGAGCACUGGAGCACCAUUCAAGCCUUGUUCGGUGACGGAGGGC--CAAGAAGGCAACCC--------
...........(((((((.....)).((((.(((.(((((((((..((.((.........))))))))))))).)))..)))--)......)))))..-------- ( -37.30)
>DroAna_CAF1 6486 96 + 1
GAGUUAAAUGAACUGCGACUUCGUCAGGCCUCAGAAACCGAGCACUGGCAGACCAUUCAGGCCUUGUUCGGUGAAGGAUCUA--AUGAAAUUCAACAU--------
(((((.......(((((....)).))).(((.....((((((((..(((.((....))..))).))))))))..))).....--....))))).....-------- ( -25.60)
>consensus
GAAUUGGGUGAGUUGAGGAUGAGCCAGGCCACCGACACCGAGCACUGGAGCACCAUCCAGGCCUUGUUCGGUGAAGGAGAGC__AAAGAAGUCAACUC________
.........(((((((((.....))......((..((((((((((((((......)))))....)))))))))..))..............)))))))........ (-17.06 = -19.45 +   2.39)

alignment

secondary structure

dotplot

Window 1

Location	831,563 – 831,659
Length	96
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	73.47
Mean single sequence MFE	-35.01
Consensus MFE	-17.12
Energy contribution	-17.85
Covariance contribution	0.73
Combinations/Pair	1.29
Mean z-score	-2.02
Structure conservation index	0.49
SVM decision value	1.06
SVM RNA-class probability	0.909022
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 831563 96 - 23771897
--------GAGUUGACUUCUUG--GCUCUCCUUCACCGAACAAGGCCUGGAUGGUGCUCCAGUGCUCGGUGUCGGUGGCCUGGCUCAUCCUCAACUCACCCAAUUC
--------(((((((......(--(((..((..((((((.....(((((((......))))).))))))))..)).)))).((.....)))))))))......... ( -35.10)
>DroPse_CAF1 6770 105 - 1
GGCACGGGGAGUCGUCUCCCCAGUGCC-CUGUUCACCGAACAGAGCGUGUAUGGUCUGCCAGUGCUCCGAAUCUGUAGAUUGUCGCACCCUCAGCUCGGACAGCUC
(((((((((((....)))))).)))))-((((...((((.(.(((.(((((..((((((.((..........))))))))..).)))).))).).))))))))... ( -45.30)
>DroSec_CAF1 6051 96 - 1
--------GAGUUGACUUCUUU--GCUCUCCAUCGCCGAACAAGGCCUGGAUGGUGCUCCAGUGCUCGGUGUCGGUGGCCUGGCUCAUCCUCAACUCACCCAAUUC
--------(((((((.......--(((.....(((((((((..((((((((......))))).)))..)).)))))))...)))......)))))))......... ( -33.32)
>DroSim_CAF1 5479 95 - 1
--------GAGUUGACUCCUUU--GCU-UCCAUCACCGAACAAGGCCUGGAUGGUGCUCCAGUGCUCGGUGUCGGUGGCCUGGCUCAUCCUCAACUCACCCAAUUC
--------(((((((.......--(((-....(((((((((..((((((((......))))).)))..)).)))))))...)))......)))))))......... ( -35.02)
>DroEre_CAF1 6898 96 - 1
--------GGGUUGCCUUCUUG--GCCCUCCGUCACCGAACAAGGCUUGAAUGGUGCUCCAGUGCUCGGUGUCGGUGGCCUGGCUUAUCCGCAACUCUCCCAACUC
--------(((((((......(--(((..(((.((((((.((.(((.........)))....)).)))))).))).)))).((.....)))))))))......... ( -37.10)
>DroAna_CAF1 6486 96 - 1
--------AUGUUGAAUUUCAU--UAGAUCCUUCACCGAACAAGGCCUGAAUGGUCUGCCAGUGCUCGGUUUCUGAGGCCUGACGAAGUCGCAGUUCAUUUAACUC
--------..(((((((....(--((((......(((((...(((((.....)))))((....))))))).)))))(..(((.((....)))))..)))))))).. ( -24.20)
>consensus
________GAGUUGACUUCUUU__GCUCUCCUUCACCGAACAAGGCCUGGAUGGUGCUCCAGUGCUCGGUGUCGGUGGCCUGGCUCAUCCUCAACUCACCCAACUC
........(((((((.................(((((((((..(((.....(((....)))..)))..)).)))))))...((.....)))))))))......... (-17.12 = -17.85 +   0.73)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:32 2006