Locus 6096

Sequence ID	X_DroMel_CAF1
Location	15,637,777 – 15,637,897
Length	120
Max. P	0.839046

overview

Window 2

Location	15,637,777 – 15,637,897
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	86.09
Mean single sequence MFE	-28.20
Consensus MFE	-25.29
Energy contribution	-25.30
Covariance contribution	0.01
Combinations/Pair	1.10
Mean z-score	-1.79
Structure conservation index	0.90
SVM decision value	0.74
SVM RNA-class probability	0.839046
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15637777 120 + 22224390
AUAAAACUGAGGAGCUUAUAUUUAUUACUUUUGACUGCACAGUGGAAUGCAUUCAAAGGUCUGUUUAUGUUUUUGUUCCGGUGUGACCGUAUUCCGAACAGGAACACAGUCUAAUUUAAA
.....((...(((((..((((..((.((((((((.((((........)))).))))))))..))..))))....)))))...))(((.((.((((.....)))).)).)))......... ( -30.70)
>DroSec_CAF1 2488 105 + 1
---------------UUAUAUUUAUUACUUUUGACUGCACAGUGGAAUGCAUUCAAAGGACUGUUUAUGUUUUUGUUCCGGUGUGACCGUAAUCCGAACAGGGACGCAGUCUGAUUUAAA
---------------..............(((((.((((........)))).)))))(((((((....(((((((((((((.....)))......)))))))))))))))))........ ( -27.30)
>DroSim_CAF1 2484 105 + 1
---------------CAAUAUUUAUUACUUUUGACUGCACAGUGGAAUGCAUUCAAGGGACUGUUUAUGUUUUUGUUCCGGUGUGACCAUAUUCCGAACAGGGACACAGUCUGAUUUAAA
---------------..............(((((.((((........)))).)))))(((((((....((((((((((.((.(((....))).)))))))))))))))))))........ ( -26.60)
>consensus
_______________UUAUAUUUAUUACUUUUGACUGCACAGUGGAAUGCAUUCAAAGGACUGUUUAUGUUUUUGUUCCGGUGUGACCGUAUUCCGAACAGGGACACAGUCUGAUUUAAA
.............................(((((.((((........)))).)))))(((((((....((((((((((.((.(((....))).)))))))))))))))))))........ (-25.29 = -25.30 +   0.01)

alignment

secondary structure

dotplot

Window 3

Location	15,637,777 – 15,637,897
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	86.09
Mean single sequence MFE	-23.53
Consensus MFE	-18.36
Energy contribution	-18.81
Covariance contribution	0.45
Combinations/Pair	1.05
Mean z-score	-1.94
Structure conservation index	0.78
SVM decision value	0.20
SVM RNA-class probability	0.631011
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15637777 120 - 22224390
UUUAAAUUAGACUGUGUUCCUGUUCGGAAUACGGUCACACCGGAACAAAAACAUAAACAGACCUUUGAAUGCAUUCCACUGUGCAGUCAAAAGUAAUAAAUAUAAGCUCCUCAGUUUUAU
.........(((((((((((.....))))))))))).....(((................((.(((((.(((((......))))).))))).)).............))).......... ( -28.85)
>DroSec_CAF1 2488 105 - 1
UUUAAAUCAGACUGCGUCCCUGUUCGGAUUACGGUCACACCGGAACAAAAACAUAAACAGUCCUUUGAAUGCAUUCCACUGUGCAGUCAAAAGUAAUAAAUAUAA---------------
.........(((((.((((......))))..(((.....)))...............))))).(((((.(((((......))))).)))))..............--------------- ( -21.80)
>DroSim_CAF1 2484 105 - 1
UUUAAAUCAGACUGUGUCCCUGUUCGGAAUAUGGUCACACCGGAACAAAAACAUAAACAGUCCCUUGAAUGCAUUCCACUGUGCAGUCAAAAGUAAUAAAUAUUG---------------
.........((((((.....((((.......(((.....))).......))))...))))))..((((.(((((......))))).))))...............--------------- ( -19.94)
>consensus
UUUAAAUCAGACUGUGUCCCUGUUCGGAAUACGGUCACACCGGAACAAAAACAUAAACAGUCCUUUGAAUGCAUUCCACUGUGCAGUCAAAAGUAAUAAAUAUAA_______________
.........((((((.....((((.......(((.....))).......))))...))))))..((((.(((((......))))).)))).............................. (-18.36 = -18.81 +   0.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:03 2006