Locus 6324

Sequence ID	3L_DroMel_CAF1
Location	16,895,248 – 16,895,342
Length	94
Max. P	0.770998

overview

Window 3

Location	16,895,248 – 16,895,342
Length	94
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	76.23
Mean single sequence MFE	-20.60
Consensus MFE	-8.71
Energy contribution	-10.62
Covariance contribution	1.91
Combinations/Pair	1.10
Mean z-score	-1.81
Structure conservation index	0.42
SVM decision value	0.04
SVM RNA-class probability	0.554106
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16895248 94 + 23771897
CAUUUUCAGCAACUGAUUUCAUAGGAAAAUUGUCUUUGCGUGUUUUGCGUACUGUGUCAAUUGACUUUCAAAAU----AAUGCCAAGUAAUCAGUUAA
..........((((((((.....((...(((((...(((((.....)))))....(((....))).......))----))).))....)))))))).. ( -16.80)
>DroSec_CAF1 6903 94 + 1
CAUUUUCAGCAACUGAUUUCUUAGGAACAUUUUCUUUGGGUGUUUUGCGUACUGUGUCAAUUGACUUUCAAAAU----AAUGCAAAGAAAUCAGUUGA
.........(((((((((((((.(((((((((.....)))))))))((((..((.(((....)))...))....----.)))).))))))))))))). ( -26.80)
>DroSim_CAF1 6619 94 + 1
CAUAUUCAGCAACUGAUUUCUUAGGAAAACUUUCUUUGUGUGUUUUGCGUACUGUAUCAAUUGACCUUCAAAAU----AAUGCUAAGUAAUCAGUUGA
.........(((((((((.(((((.(...........(((((.....)))))........(((.....)))...----..).))))).))))))))). ( -18.60)
>DroEre_CAF1 7177 93 + 1
CACUUUCAGGAACCGAUUUCUUGGGAACAUUUUCUCUUGGUGUUUGGGUUACUG-GCCAAUUGACUUUCAAAAU----AGUGCUAAGAAAUCAGUUAA
..........(((.(((((((((((((((((.......))))))).(((.....-)))................----....)))))))))).))).. ( -20.40)
>DroYak_CAF1 7524 79 + 1
CACUUUCAGCCACCGAUUUCUUAGGAUUAUUUUG------------------UG-GCCAAAUGACUAUCGAAAUCUAAGAUGCUAAGAAAUCAGGUAA
...........(((((((((((((.(((((((((------------------((-(.(....).))).))))))....))).)))))))))).))).. ( -20.40)
>consensus
CAUUUUCAGCAACUGAUUUCUUAGGAAAAUUUUCUUUGGGUGUUUUGCGUACUGUGUCAAUUGACUUUCAAAAU____AAUGCUAAGAAAUCAGUUAA
..........((((((((((((((.(.............(((.......)))........(((.....))).........).)))))))))))))).. ( -8.71 = -10.62 +   1.91)

alignment

secondary structure

dotplot

Window 4

Location	16,895,248 – 16,895,342
Length	94
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	76.23
Mean single sequence MFE	-17.72
Consensus MFE	-12.70
Energy contribution	-13.52
Covariance contribution	0.82
Combinations/Pair	1.25
Mean z-score	-1.45
Structure conservation index	0.72
SVM decision value	0.53
SVM RNA-class probability	0.770998
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16895248 94 - 23771897
UUAACUGAUUACUUGGCAUU----AUUUUGAAAGUCAAUUGACACAGUACGCAAAACACGCAAAGACAAUUUUCCUAUGAAAUCAGUUGCUGAAAAUG
.(((((((((.(..((....----(..(((...(((....))).......((.......)).....)))..).))...).)))))))))......... ( -14.00)
>DroSec_CAF1 6903 94 - 1
UCAACUGAUUUCUUUGCAUU----AUUUUGAAAGUCAAUUGACACAGUACGCAAAACACCCAAAGAAAAUGUUCCUAAGAAAUCAGUUGCUGAAAAUG
.(((((((((((((.(((((----.(((((...(((....)))...((.......))...)))))..)))))....)))))))))))))......... ( -22.70)
>DroSim_CAF1 6619 94 - 1
UCAACUGAUUACUUAGCAUU----AUUUUGAAGGUCAAUUGAUACAGUACGCAAAACACACAAAGAAAGUUUUCCUAAGAAAUCAGUUGCUGAAUAUG
.(((((((((.(((((.(..----(((((....(((....)))...((.......))........)))))..).))))).)))))))))......... ( -16.80)
>DroEre_CAF1 7177 93 - 1
UUAACUGAUUUCUUAGCACU----AUUUUGAAAGUCAAUUGGC-CAGUAACCCAAACACCAAGAGAAAAUGUUCCCAAGAAAUCGGUUCCUGAAAGUG
..((((((((((((((((..----.(((((...((...((((.-.......))))))..))))).....))))...)))))))))))).......... ( -16.50)
>DroYak_CAF1 7524 79 - 1
UUACCUGAUUUCUUAGCAUCUUAGAUUUCGAUAGUCAUUUGGC-CA------------------CAAAAUAAUCCUAAGAAAUCGGUGGCUGAAAGUG
.((((.((((((((((.......((((.....)))).((((..-..------------------))))......)))))))))))))).......... ( -18.60)
>consensus
UUAACUGAUUUCUUAGCAUU____AUUUUGAAAGUCAAUUGACACAGUACGCAAAACACCCAAAGAAAAUGUUCCUAAGAAAUCAGUUGCUGAAAAUG
.(((((((((((((((.................(((....)))...((.......)).................)))))))))))))))......... (-12.70 = -13.52 +   0.82)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:42 2006