Locus 7386

Sequence ID	3L_DroMel_CAF1
Location	19,839,532 – 19,839,660
Length	128
Max. P	0.981856

overview

Window 9

Location	19,839,532 – 19,839,636
Length	104
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	88.61
Mean single sequence MFE	-29.78
Consensus MFE	-24.02
Energy contribution	-24.26
Covariance contribution	0.24
Combinations/Pair	1.05
Mean z-score	-1.73
Structure conservation index	0.81
SVM decision value	0.69
SVM RNA-class probability	0.824443
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19839532 104 + 23771897
----------ACACAGAAAUGUUUUGAAAUUCUGUGCUAAAAUCGUGACCUCCACUGUAAACAGUGGGCGCUGGCAAUGUCGUUGGCAACAAUUAUGCACCUUGUUGGCAAUGC
----------.(((((((.(.......).)))))))..............(((((((....))))))).((..(((((((.((((....))))...)))..))))..))..... ( -31.00)
>DroSec_CAF1 23293 104 + 1
----------ACACAGAAAUGUUUUGAAAUUCUUUGCUAAAAUCGUGACCUCCACUGAAAACAGUGGGCGCUGGCAAUGUCGUUGGCAACAAUUAUGCACCUUGUUGGCAAUGC
----------..(((....)))...........(((((((....(((...(((((((....))))))).((..((......))..))..........)))....)))))))... ( -27.90)
>DroSim_CAF1 26543 104 + 1
----------ACACAGAAAUGUUUUGAAAUUCUGUGCUAAAAUCGUGACCUCCACUGUAAACAGUGGGCGCUGGCAAUGUCGUUGGCAACAAUUAUGCACCUUGUUGGCAAUGC
----------.(((((((.(.......).)))))))..............(((((((....))))))).((..(((((((.((((....))))...)))..))))..))..... ( -31.00)
>DroEre_CAF1 23376 104 + 1
----------AAAAAACAGUGUUUGGAUAUUCUGUUCUAAAAUUGUGACCUCCAAUGUAAACAGUGGGCGCUGGCAAUGUCGUUGGCAACGAUUAUGCACCUUGUUGGCAAUGC
----------.....(((((.((((((........)))))))))))....((((.((....)).)))).((..(((((((.((((....))))...)))..))))..))..... ( -24.90)
>DroYak_CAF1 23408 114 + 1
CAAAAUCUGAAAACAACAGUAUUUGGAAAUUCUCUGCUAAUAUUGUGACCUCCACUGUAAACAGUGGGCGCUGGCAAUGUCGCUGGCAACAAUUAUGCACCCUGUUGGCAAUGC
.....((..((.((....)).))..)).......((((((((..(((...(((((((....))))))).((..((......))..))..........)))..)))))))).... ( -34.10)
>consensus
__________ACACAGAAAUGUUUUGAAAUUCUGUGCUAAAAUCGUGACCUCCACUGUAAACAGUGGGCGCUGGCAAUGUCGUUGGCAACAAUUAUGCACCUUGUUGGCAAUGC
..................................((((((....(((...(((((((....))))))).((..((......))..))..........)))....)))))).... (-24.02 = -24.26 +   0.24)

alignment

secondary structure

dotplot

Window 0

Location	19,839,562 – 19,839,660
Length	98
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	94.59
Mean single sequence MFE	-32.70
Consensus MFE	-29.26
Energy contribution	-29.58
Covariance contribution	0.32
Combinations/Pair	1.07
Mean z-score	-1.73
Structure conservation index	0.89
SVM decision value	1.90
SVM RNA-class probability	0.981856
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19839562 98 + 23771897
AAUCGUGACCUCCACUGUAAACAGUGGGCGCUGGCAAUGUCGUUGGCAACAAUUAUGCACCUUGUUGGCAAUGCCGAGCUUACAAGCUGUCGCAUUGG
....(((((.(((((((....))))))).(((((((.((((((((....))))...((.....)).)))).)))).))).........)))))..... ( -34.10)
>DroSec_CAF1 23323 98 + 1
AAUCGUGACCUCCACUGAAAACAGUGGGCGCUGGCAAUGUCGUUGGCAACAAUUAUGCACCUUGUUGGCAAUGCCGAGCUUACAAGCUGUCGCAUUGG
....(((((.(((((((....))))))).(((((((.((((((((....))))...((.....)).)))).)))).))).........)))))..... ( -33.30)
>DroSim_CAF1 26573 98 + 1
AAUCGUGACCUCCACUGUAAACAGUGGGCGCUGGCAAUGUCGUUGGCAACAAUUAUGCACCUUGUUGGCAAUGCCGAGCUUACAAGCUGUCGCAUUGG
....(((((.(((((((....))))))).(((((((.((((((((....))))...((.....)).)))).)))).))).........)))))..... ( -34.10)
>DroEre_CAF1 23406 98 + 1
AAUUGUGACCUCCAAUGUAAACAGUGGGCGCUGGCAAUGUCGUUGGCAACGAUUAUGCACCUUGUUGGCAAUGCUGAGCUUACAAGCUUUCGCAUUGG
...........(((((((...(((((...((..(((((((.((((....))))...)))..))))..))..)))))((((....))))...))))))) ( -28.90)
>DroYak_CAF1 23448 98 + 1
UAUUGUGACCUCCACUGUAAACAGUGGGCGCUGGCAAUGUCGCUGGCAACAAUUAUGCACCCUGUUGGCAAUGCCGAGCGUACACGCUAUCGAAUUGG
....(((....((((((....))))))(((((((((.((((((..(((.......))).....).))))).)))).))))).)))............. ( -33.10)
>consensus
AAUCGUGACCUCCACUGUAAACAGUGGGCGCUGGCAAUGUCGUUGGCAACAAUUAUGCACCUUGUUGGCAAUGCCGAGCUUACAAGCUGUCGCAUUGG
..........(((((((....))))))).((..(((((((.((((....))))...)))..))))..))(((((..((((....))))...))))).. (-29.26 = -29.58 +   0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:41 2006