Locus 5496

Sequence ID	3L_DroMel_CAF1
Location	15,075,152 – 15,075,244
Length	92
Max. P	0.838330

overview

Window 9

Location	15,075,152 – 15,075,244
Length	92
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	82.51
Mean single sequence MFE	-31.27
Consensus MFE	-23.19
Energy contribution	-24.97
Covariance contribution	1.78
Combinations/Pair	1.14
Mean z-score	-2.33
Structure conservation index	0.74
SVM decision value	0.74
SVM RNA-class probability	0.838330
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15075152 92 + 23771897
AAGGAGGCGGAGGACUUGAGCAGAAAGC---CACCUCCGCCACAGCAAAUGACAUCUCCAGUGGCACCCUCACUACAAGUGCUAGUGGAACCACC
..((.((((((((...((.((.....))---))))))))))...............((((.((((((...........)))))).)))).))... ( -35.30)
>DroSec_CAF1 39813 92 + 1
AAGGAGGCGGAGGACUUGAGCAGAAAGC---CACCUCCGCCACAGCAACAGACAUCUCCAGUGGCACCCUCACUACAAGUGCUGGUGGAACCACC
..((.((((((((...((.((.....))---))))))))))...............((((.((((((...........)))))).)))).))... ( -34.00)
>DroSim_CAF1 41113 92 + 1
AAGGAGGCGGAGGACUUGAGCAGAAAGC---CACCUCCGCCACAGCACCAGACAUCUCCAGUGGCACCCUCACUACAAGUGCUGGUGGAACCACC
..((.((((((((...((.((.....))---))))))))))....((((((.(((....(((((.....)))))....)))))))))...))... ( -36.70)
>DroEre_CAF1 41014 95 + 1
AAGGAGGCGGAAGAUUUAAGCAGAAAGCCGCCACCUCCACCACCGCAACAGAUAUCUCCAGUAGCACCCUCACUUCAAGUGCUGGUGGAACCACC
..(((((.((....(((......)))....)).)))))..................((((.((((((...........)))))).))))...... ( -26.70)
>DroYak_CAF1 41264 92 + 1
AAGGAGGCGGAAGAUUUGAGCAGAAAGC---CACCUCCACCACAGCAACAGAUAUCUCCAGUGGCACCCGCACUUCAAGUGCUGGUGGAACCACC
..(((((.((....(((......))).)---).)))))......................((((((((.((((.....)))).))))...)))). ( -28.40)
>DroAna_CAF1 38514 83 + 1
AAGGAGGCCGAGGAUCUGAGCAAGAAGC---CCCCUCUGCAGCAGCAUCCGC---------AGGUUCCUCUGGUCCAAAUGCUGGUGGAGCCACC
..((.....(.(((((((.(((.((...---....)))))..))).)))).)---------.((((((.(..((......))..).)))))).)) ( -26.50)
>consensus
AAGGAGGCGGAGGACUUGAGCAGAAAGC___CACCUCCGCCACAGCAACAGACAUCUCCAGUGGCACCCUCACUACAAGUGCUGGUGGAACCACC
..((.((((((((......((.....)).....))))))))...............((((.((((((...........)))))).)))).))... (-23.19 = -24.97 +   1.78)

alignment

secondary structure

dotplot

Window 0

Location	15,075,152 – 15,075,244
Length	92
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	82.51
Mean single sequence MFE	-35.48
Consensus MFE	-26.49
Energy contribution	-26.30
Covariance contribution	-0.19
Combinations/Pair	1.25
Mean z-score	-1.67
Structure conservation index	0.75
SVM decision value	0.28
SVM RNA-class probability	0.664128
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15075152 92 - 23771897
GGUGGUUCCACUAGCACUUGUAGUGAGGGUGCCACUGGAGAUGUCAUUUGCUGUGGCGGAGGUG---GCUUUCUGCUCAAGUCCUCCGCCUCCUU
(((((...((((..(((.....)))..)))))))))((((....(((.....)))(((((((.(---((.....))).....))))))))))).. ( -35.30)
>DroSec_CAF1 39813 92 - 1
GGUGGUUCCACCAGCACUUGUAGUGAGGGUGCCACUGGAGAUGUCUGUUGCUGUGGCGGAGGUG---GCUUUCUGCUCAAGUCCUCCGCCUCCUU
(((((...((((..(((.....)))..)))))))))((((((....))).....((((((((.(---((.....))).....))))))))))).. ( -35.70)
>DroSim_CAF1 41113 92 - 1
GGUGGUUCCACCAGCACUUGUAGUGAGGGUGCCACUGGAGAUGUCUGGUGCUGUGGCGGAGGUG---GCUUUCUGCUCAAGUCCUCCGCCUCCUU
((((....)))).((((((.......))))))(((..((....))..)))....((((((((.(---((.....))).....))))))))..... ( -38.30)
>DroEre_CAF1 41014 95 - 1
GGUGGUUCCACCAGCACUUGAAGUGAGGGUGCUACUGGAGAUAUCUGUUGCGGUGGUGGAGGUGGCGGCUUUCUGCUUAAAUCUUCCGCCUCCUU
((((.(((((..(((((((.......)))))))..))))).))))......((.((((((((.(((((....))))).....)))))))).)).. ( -37.90)
>DroYak_CAF1 41264 92 - 1
GGUGGUUCCACCAGCACUUGAAGUGCGGGUGCCACUGGAGAUAUCUGUUGCUGUGGUGGAGGUG---GCUUUCUGCUCAAAUCUUCCGCCUCCUU
(((((...((((.((((.....)))).)))))))))(((.(((.(....).)))((((((((.(---((.....))).....))))))))))).. ( -33.40)
>DroAna_CAF1 38514 83 - 1
GGUGGCUCCACCAGCAUUUGGACCAGAGGAACCU---------GCGGAUGCUGCUGCAGAGGGG---GCUUCUUGCUCAGAUCCUCGGCCUCCUU
((((....)))).......((.((.(((((..((---------((((......))))))...((---((.....))))...)))))))))..... ( -32.30)
>consensus
GGUGGUUCCACCAGCACUUGUAGUGAGGGUGCCACUGGAGAUGUCUGUUGCUGUGGCGGAGGUG___GCUUUCUGCUCAAAUCCUCCGCCUCCUU
((((....)))).((((((.......))))))......................((((((((.....((.....))......))))))))..... (-26.49 = -26.30 +  -0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:45 2006