Locus 5692

Sequence ID	2R_DroMel_CAF1
Location	18,032,683 – 18,032,783
Length	100
Max. P	0.999731

overview

Window 2

Location	18,032,683 – 18,032,783
Length	100
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	97.32
Mean single sequence MFE	-19.30
Consensus MFE	-18.97
Energy contribution	-19.13
Covariance contribution	0.17
Combinations/Pair	1.00
Mean z-score	-1.85
Structure conservation index	0.98
SVM decision value	3.56
SVM RNA-class probability	0.999381
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18032683 100 + 20766785
AAAGAAUUGAAAGCAUAAAAGCUUUCGUGUCGUCAUUAAAAACUGUUUUUGCUAAUUAAGUGCUCAAUUGAGCAUUCAAUUU--CACACACACACACAAAGG
........((((((......))))))((((.((........))(((.(.((..((((.(((((((....))))))).)))).--)).).))).))))..... ( -20.00)
>DroSec_CAF1 46669 102 + 1
AAAGAAUUGAAAGCAUAAAAGCUUUCGUGUCGUCAUUAAAAACUGUUUUUGCUAAUUAAGUGCUCAAUUGAGCAUUCAAUUUCUCACACACACACACAAAGG
........((((((......))))))((((.((...........((....)).((((.(((((((....))))))).))))....))))))........... ( -19.90)
>DroSim_CAF1 45696 102 + 1
AAAGAAUUGAAAGCAUAAAAGCUUUCGUGUCGUCAUUAAAAACUGUUUUUGCUAAUUAAGUGCUCAAUUGAGCAUUCAAUUUCUCACACACACACACAAAGG
........((((((......))))))((((.((...........((....)).((((.(((((((....))))))).))))....))))))........... ( -19.90)
>DroEre_CAF1 48398 102 + 1
AAAGAAUUGAAAGCAUAAAAGCUUUCGUGUCGUCAUUAAAAACUGUUUUUGCUAAUUAAGUGCUCAAUUGAGCAUUCAAUUUCACACACACACACACAAAGG
........((((((......))))))((((.((........))(((.(.((..((((.(((((((....))))))).)))).)).).))).))))....... ( -20.00)
>DroYak_CAF1 46675 102 + 1
AAAGAAUUGAAAGCAUAAAAGCUUUCGUGUCGUCAUUAAAAACUGUUUUUGCUAAUUAAGUGCUCAAUUGAGCAUUCAAUUUCACACACACACACACAAAGG
........((((((......))))))((((.((........))(((.(.((..((((.(((((((....))))))).)))).)).).))).))))....... ( -20.00)
>DroAna_CAF1 41350 102 + 1
ACAGAAUUCAAAGCAUAAAAGCUUUCGUGUCGUCAUUAAAAACUGUUUUUGCUAAUUAAGUGCUCAAUUGAGCAUUCAAUUUCACACACACACACAAAAGAG
.......(((((((......))))).((((.((........))(((.(.((..((((.(((((((....))))))).)))).)).).))).))))....)). ( -16.00)
>consensus
AAAGAAUUGAAAGCAUAAAAGCUUUCGUGUCGUCAUUAAAAACUGUUUUUGCUAAUUAAGUGCUCAAUUGAGCAUUCAAUUUCACACACACACACACAAAGG
........((((((......))))))((((.((...........((....)).((((.(((((((....))))))).))))....))))))........... (-18.97 = -19.13 +   0.17)

alignment

secondary structure

dotplot

Window 3

Location	18,032,683 – 18,032,783
Length	100
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	97.32
Mean single sequence MFE	-27.38
Consensus MFE	-25.02
Energy contribution	-25.18
Covariance contribution	0.17
Combinations/Pair	1.00
Mean z-score	-3.04
Structure conservation index	0.91
SVM decision value	3.96
SVM RNA-class probability	0.999731
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18032683 100 - 20766785
CCUUUGUGUGUGUGUGUG--AAAUUGAAUGCUCAAUUGAGCACUUAAUUAGCAAAAACAGUUUUUAAUGACGACACGAAAGCUUUUAUGCUUUCAAUUCUUU
.....((((.(((.(((.--.((((((.(((((....))))).)))))).)))...)))(((......))).))))((((((......))))))........ ( -28.00)
>DroSec_CAF1 46669 102 - 1
CCUUUGUGUGUGUGUGUGAGAAAUUGAAUGCUCAAUUGAGCACUUAAUUAGCAAAAACAGUUUUUAAUGACGACACGAAAGCUUUUAUGCUUUCAAUUCUUU
.....((((.(((.(((....((((((.(((((....))))).)))))).)))...)))(((......))).))))((((((......))))))........ ( -26.90)
>DroSim_CAF1 45696 102 - 1
CCUUUGUGUGUGUGUGUGAGAAAUUGAAUGCUCAAUUGAGCACUUAAUUAGCAAAAACAGUUUUUAAUGACGACACGAAAGCUUUUAUGCUUUCAAUUCUUU
.....((((.(((.(((....((((((.(((((....))))).)))))).)))...)))(((......))).))))((((((......))))))........ ( -26.90)
>DroEre_CAF1 48398 102 - 1
CCUUUGUGUGUGUGUGUGUGAAAUUGAAUGCUCAAUUGAGCACUUAAUUAGCAAAAACAGUUUUUAAUGACGACACGAAAGCUUUUAUGCUUUCAAUUCUUU
.....((((.(((...(((..((((((.(((((....))))).)))))).)))...)))(((......))).))))((((((......))))))........ ( -28.70)
>DroYak_CAF1 46675 102 - 1
CCUUUGUGUGUGUGUGUGUGAAAUUGAAUGCUCAAUUGAGCACUUAAUUAGCAAAAACAGUUUUUAAUGACGACACGAAAGCUUUUAUGCUUUCAAUUCUUU
.....((((.(((...(((..((((((.(((((....))))).)))))).)))...)))(((......))).))))((((((......))))))........ ( -28.70)
>DroAna_CAF1 41350 102 - 1
CUCUUUUGUGUGUGUGUGUGAAAUUGAAUGCUCAAUUGAGCACUUAAUUAGCAAAAACAGUUUUUAAUGACGACACGAAAGCUUUUAUGCUUUGAAUUCUGU
..(((((((((.(((.(((..((((((.(((((....))))).)))))).)))...)))(((......))).)))))))))..................... ( -25.10)
>consensus
CCUUUGUGUGUGUGUGUGUGAAAUUGAAUGCUCAAUUGAGCACUUAAUUAGCAAAAACAGUUUUUAAUGACGACACGAAAGCUUUUAUGCUUUCAAUUCUUU
.......((((((.(((....((((((.(((((....))))).)))))).)))...)).(((......))).))))((((((......))))))........ (-25.02 = -25.18 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:55 2006