Locus 8056

Sequence ID	3L_DroMel_CAF1
Location	21,233,412 – 21,233,513
Length	101
Max. P	0.632858

overview

Window 5

Location	21,233,412 – 21,233,513
Length	101
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	84.29
Mean single sequence MFE	-23.72
Consensus MFE	-15.54
Energy contribution	-16.64
Covariance contribution	1.10
Combinations/Pair	1.00
Mean z-score	-1.91
Structure conservation index	0.66
SVM decision value	0.20
SVM RNA-class probability	0.632858
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21233412 101 + 23771897
AUUGGAUUGGAUGGAAUUAAAUUAGCUCGCCACGAGCUGCUGCCCCCUUCCAAAUCCAAAUCCAAAUCCAGGUCCAUCUCUAAACUUACCAUCCACGGGCG
.(((((((((((((((......(((((((...)))))))........)))))..))).)))))))......((((.....................)))). ( -25.84)
>DroSec_CAF1 628 101 + 1
AUUGGAUUGGAUGGAAUUAAAUUAGCUCGCCACGAGCAGCGGCCCACUUCCAAAUCCUAAUCCAAAUCCAGGUCCAUCUCUGAACUUACCCUCCACGGGCG
.(((((((((((((((........(((((...)))))...(.....))))))..))).)))))))...((((......))))......(((.....))).. ( -25.90)
>DroSim_CAF1 638 101 + 1
AUUGGAUUGGAUGGAAUUAAAUUAGCUCUCCACGAGCUGCUGCCCACUUCCAAAUCCUAAUCCAAAUCCAGGUCCAUCUCUGAACUUACCCUCCACGGGCG
.(((((((((((((((......((((((.....))))))........)))))..))).)))))))...((((......))))......(((.....))).. ( -27.04)
>DroEre_CAF1 586 84 + 1
AUUGGA-----UUGAAUUAAAUUAGCUCGCCACGAGCUGCUGUCCCCUUCCAA------------AUCCAGGUCCAUUUCUGAACUUACCCUCCAUGGGCG
.(((((-----(((((......(((((((...)))))))........)))..)------------))))))((((((....((........)).)))))). ( -18.94)
>DroYak_CAF1 585 84 + 1
AUUAGA-----UGGAAUUAAAUUAGCUCGCCACGAGCUGCUGCCCCCUUCCAA------------AUCCAGGUCCAUCUCUGAACUUACCCUCUAUGGGCG
...(((-----((((.......(((((((...)))))))......(((.....------------....)))))))))).........(((.....))).. ( -20.90)
>consensus
AUUGGAUUGGAUGGAAUUAAAUUAGCUCGCCACGAGCUGCUGCCCCCUUCCAAAUCC_AAUCCAAAUCCAGGUCCAUCUCUGAACUUACCCUCCACGGGCG
.(((((((((((((((......((((((.....))))))........)))))........))))).)))))((((.....................)))). (-15.54 = -16.64 +   1.10)

alignment

secondary structure

dotplot

Window 6

Location	21,233,412 – 21,233,513
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	84.29
Mean single sequence MFE	-29.96
Consensus MFE	-21.16
Energy contribution	-21.78
Covariance contribution	0.62
Combinations/Pair	1.10
Mean z-score	-1.59
Structure conservation index	0.71
SVM decision value	-0.02
SVM RNA-class probability	0.522483
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21233412 101 - 23771897
CGCCCGUGGAUGGUAAGUUUAGAGAUGGACCUGGAUUUGGAUUUGGAUUUGGAAGGGGGCAGCAGCUCGUGGCGAGCUAAUUUAAUUCCAUCCAAUCCAAU
...(((.....(((..(((....)))..)))......)))..(((((((.(((.((((.....((((((...)))))).......)))).)))))))))). ( -28.10)
>DroSec_CAF1 628 101 - 1
CGCCCGUGGAGGGUAAGUUCAGAGAUGGACCUGGAUUUGGAUUAGGAUUUGGAAGUGGGCCGCUGCUCGUGGCGAGCUAAUUUAAUUCCAUCCAAUCCAAU
.((((.....))))..(((((....))))).((((((.((((..(((.((((((((..(((((.....)))))..)))..))))).))))))))))))).. ( -36.50)
>DroSim_CAF1 638 101 - 1
CGCCCGUGGAGGGUAAGUUCAGAGAUGGACCUGGAUUUGGAUUAGGAUUUGGAAGUGGGCAGCAGCUCGUGGAGAGCUAAUUUAAUUCCAUCCAAUCCAAU
.((((.....))))((((((((........))))))))(((((.(((..(((((((.....))(((((.....))))).......)))))))))))))... ( -33.40)
>DroEre_CAF1 586 84 - 1
CGCCCAUGGAGGGUAAGUUCAGAAAUGGACCUGGAU------------UUGGAAGGGGACAGCAGCUCGUGGCGAGCUAAUUUAAUUCAA-----UCCAAU
.((((.....))))..(((((....))))).(((((------------(.(((.(....)...((((((...)))))).......)))))-----)))).. ( -27.30)
>DroYak_CAF1 585 84 - 1
CGCCCAUAGAGGGUAAGUUCAGAGAUGGACCUGGAU------------UUGGAAGGGGGCAGCAGCUCGUGGCGAGCUAAUUUAAUUCCA-----UCUAAU
.((((.....))))........((((((((((....------------.....))).......((((((...))))))........))))-----)))... ( -24.50)
>consensus
CGCCCGUGGAGGGUAAGUUCAGAGAUGGACCUGGAUUUGGAUU_GGAUUUGGAAGGGGGCAGCAGCUCGUGGCGAGCUAAUUUAAUUCCAUCCAAUCCAAU
.((((.....))))..(((((....))))).((((.(((((........(((((..(((....(((((.....)))))..)))..)))))))))))))).. (-21.16 = -21.78 +   0.62)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:05:05 2006