Locus 2807

Sequence ID	3R_DroMel_CAF1
Location	7,511,584 – 7,511,721
Length	137
Max. P	0.667477

overview

Window 9

Location	7,511,584 – 7,511,688
Length	104
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	80.82
Mean single sequence MFE	-32.67
Consensus MFE	-18.23
Energy contribution	-18.68
Covariance contribution	0.45
Combinations/Pair	1.36
Mean z-score	-2.12
Structure conservation index	0.56
SVM decision value	0.26
SVM RNA-class probability	0.658947
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7511584 104 + 27905053
UUUCCAUUUCCUUGGGAAACAUAUUAACGUCCGUAAAGUUGUCGGGCGUGGACUUUGGCUGCACUUUCAGUAUGUAGGAGAACGUCUUGGAAGUGUGAUCUGCA-------
...(((..(((...(....)......(((((((.........))))))))))...)))..((((((((((.((((......)))).))))))))))........------- ( -30.70)
>DroSec_CAF1 7275 104 + 1
UUUCCCUUUCCUUGGGAAACAUAUUAACGUCCGUAAAGUUGUCGGGCGUGGACUGUGGCAUCACUUUCAGGAUGUAGGACAACGUCUUGGAUGUGUUAUCUGCA-------
((((((.......))))))((((...(((((((.........)))))))....))))(((.(((.((((((((((......)))))))))).))).....))).------- ( -36.10)
>DroSim_CAF1 7625 104 + 1
UUUCCCUUUCCUUGGGAAACAUAUUAACGUCCGUAAAGUUGUCGGGCGUGGCCUGUGGCAUCACUUUCAGGAUGUAGGAAAACGUCUUGGAAGUGUUAUCUGCA-------
((((((.......))))))((((...(((((((.........)))))))....))))(((.((((((((((((((......)))))))))))))).....))).------- ( -40.20)
>DroEre_CAF1 7341 104 + 1
UUUCCAUUUCUUUGGGAAACAUAUUAGCAUCGUUAAAGUUGUCGGGUGUGGAGCUCGGCUGUACUUUCAGGAUGUAGGAGAACGUCUUGGCAGUGUUAUCUGCA-------
(((((.........(....)......(((((.(.(((((.(((((((.....)))))))...))))).).))))).)))))........((((......)))).------- ( -31.80)
>DroYak_CAF1 7373 104 + 1
UUUCCAUUUCCUUGGGAAACAUAUUGACGUCGGUAAAGUUAUCGGGAGUGGACUUCGGCAGCACUUUCAGGAUGUAGGAGAAGGUCUUGGCAGUGUUAUCUGCA-------
..(((((((((...(....).(((((....)))))........))))))))).....((((((((.(((((((.(......).))))))).))))....)))).------- ( -32.20)
>DroAna_CAF1 7383 111 + 1
UUUCCAUUUCUUUUGGAAACAUAUUAAAAUCUGCGAAAUUCUCCCCCGUGUCUGGGAGUUUUACUUUUAGGAUGUAGGAGAAUGUCUUUGAACUGCUGUCUGUUAAUUAAA
((((((.......))))))..........((...((.(((((((..(((.((((((((.....)))))))))))..))))))).))...)).................... ( -25.00)
>consensus
UUUCCAUUUCCUUGGGAAACAUAUUAACGUCCGUAAAGUUGUCGGGCGUGGACUGUGGCAGCACUUUCAGGAUGUAGGAGAACGUCUUGGAAGUGUUAUCUGCA_______
(((((.........))))).............(((.....((((((.......))))))..((((((((((((((......)))))))))))))).....)))........ (-18.23 = -18.68 +   0.45)

alignment

secondary structure

dotplot

Window 0

Location	7,511,624 – 7,511,721
Length	97
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	73.89
Mean single sequence MFE	-28.33
Consensus MFE	-17.07
Energy contribution	-17.88
Covariance contribution	0.81
Combinations/Pair	1.28
Mean z-score	-1.38
Structure conservation index	0.60
SVM decision value	0.28
SVM RNA-class probability	0.667477
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7511624 97 + 27905053
GUCGGGCGUGGACUUUGGCUGCACUUUCAGUAUGUAGGAGAACGUCUUGGAAGUGUGAUCUGCA-------AAGGA----UUUUCUCGAUUAAGCCCACUCUCACACU
((.(((.((((.(((...(.((((((((((.((((......)))).))))))))))(((((...-------..)))----)).....)...))).)))).)))))... ( -28.00)
>DroSec_CAF1 7315 97 + 1
GUCGGGCGUGGACUGUGGCAUCACUUUCAGGAUGUAGGACAACGUCUUGGAUGUGUUAUCUGCA-------UAGGA----UUCUCUUGAUUAAACGUACUCUCACACU
((((((.(.(..(((((.((.(((.((((((((((......)))))))))).))).....))))-------)))..----).).)))))).................. ( -25.00)
>DroSim_CAF1 7665 97 + 1
GUCGGGCGUGGCCUGUGGCAUCACUUUCAGGAUGUAGGAAAACGUCUUGGAAGUGUUAUCUGCA-------UAGGA----UUUUCUUUAUUAAACCCACUCUCACACU
((.(((.((((((((((.((.((((((((((((((......)))))))))))))).....))))-------)))).----(((........))).)))).)))))... ( -33.10)
>DroEre_CAF1 7381 96 + 1
GUCGGGUGUGGAGCUCGGCUGUACUUUCAGGAUGUAGGAGAACGUCUUGGCAGUGUUAUCUGCA--------AGGA----UAUUCUUGAUUAAGCCCACUCUCACUCA
...(((((.((((...((((.((((.(((((((((......))))))))).)))).......((--------(((.----...)))))....))))..))))))))). ( -31.90)
>DroYak_CAF1 7413 96 + 1
AUCGGGAGUGGACUUCGGCAGCACUUUCAGGAUGUAGGAGAAGGUCUUGGCAGUGUUAUCUGCA--------AGGA----UAUUCUCAAUGAAACCCACUCUCACACA
...((((((((..((((...(((((....)).)))..(((((.(((((.((((......)))).--------))))----).)))))..))))..))))))))..... ( -34.20)
>DroAna_CAF1 7423 106 + 1
CUCCCCCGUGUCUGGGAGUUUUACUUUUAGGAUGUAGGAGAAUGUCUUUGAACUGCUGUCUGUUAAUUAAAAAGUAAUUGUUUUGUUCUUUAAAUAAAUAUUGU--CU
((((..(((.((((((((.....)))))))))))..))))(((((.((((((..((.......((((((.....))))))....))..))))))...)))))..--.. ( -17.80)
>consensus
GUCGGGCGUGGACUGUGGCAGCACUUUCAGGAUGUAGGAGAACGUCUUGGAAGUGUUAUCUGCA________AGGA____UUUUCUUGAUUAAACCCACUCUCACACU
...(((.((((..........((((((((((((((......)))))))))))))).................((((.......))))........)))).)))..... (-17.07 = -17.88 +   0.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:09 2006