Locus 5672

Sequence ID	2L_DroMel_CAF1
Location	16,110,402 – 16,110,495
Length	93
Max. P	0.979888

overview

Window 9

Location	16,110,402 – 16,110,495
Length	93
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	92.42
Mean single sequence MFE	-26.20
Consensus MFE	-23.38
Energy contribution	-22.82
Covariance contribution	-0.56
Combinations/Pair	1.12
Mean z-score	-1.72
Structure conservation index	0.89
SVM decision value	1.85
SVM RNA-class probability	0.979888
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16110402 93 + 22407834
GUCACACGGAGGCAACAAAUGUUUUCCAUGUUUGCCGACGCACAGCGUCACAUGAGACAAAGUCUCAUGUUCCCAGUC------UCCAUUGGGAAAACU
..........(((((...(((.....)))..)))))(((((...)))))(((((((((...)))))))))(((((((.------...)))))))..... ( -33.20)
>DroSec_CAF1 39534 88 + 1
GUCACACGGAGGCAACAAAUGUUUUCCAUGUUUGCCGACGCACAGCGUCACAUGAGACAAAGUCU-----ACCCGGUC------UCCAUUGGGAAAACU
(((.((.(..(((((...(((.....)))..)))))(((((...))))).).)).))).......-----.((((((.------...))))))...... ( -24.40)
>DroSim_CAF1 40698 88 + 1
GUCACACGGAGGCAACAAAUGUUUUCCAUGUUUGCCGACGCACAGCGUCACAUGAGACAAAGUCU-----ACCCGGUC------UCCAUUGGGAAAACU
(((.((.(..(((((...(((.....)))..)))))(((((...))))).).)).))).......-----.((((((.------...))))))...... ( -24.40)
>DroEre_CAF1 40987 94 + 1
GUCACACGGAGGCAACAAAUGUUUGCCAUGUUUGUCGACGCACAGCGUCACAUGAGACAAAGUCU-----ACCCAGUCCGCUGCUCCAUUGGGAAAACU
(((.((....((((((....).))))).....(((.(((((...)))))))))).))).......-----.((((((..........))))))...... ( -23.40)
>DroYak_CAF1 41596 88 + 1
GUCACACGGAGGCAACAAAUGUUUUCCAUGUUUGCCGACGCACCGCGUCACAUGAGACAAAGUCU-----ACCCAGUC------UCCGUUGGGAAAACU
.(((.((((((((.............(((((.....(((((...))))))))))((((...))))-----.....)))------))))))))....... ( -25.60)
>consensus
GUCACACGGAGGCAACAAAUGUUUUCCAUGUUUGCCGACGCACAGCGUCACAUGAGACAAAGUCU_____ACCCAGUC______UCCAUUGGGAAAACU
(((.((.(..(((((...(((.....)))..)))))(((((...))))).).)).))).............((((((..........))))))...... (-23.38 = -22.82 +  -0.56)

alignment

secondary structure

dotplot

Window 0

Location	16,110,402 – 16,110,495
Length	93
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	92.42
Mean single sequence MFE	-30.52
Consensus MFE	-22.35
Energy contribution	-22.55
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.90
Structure conservation index	0.73
SVM decision value	0.04
SVM RNA-class probability	0.552063
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16110402 93 - 22407834
AGUUUUCCCAAUGGA------GACUGGGAACAUGAGACUUUGUCUCAUGUGACGCUGUGCGUCGGCAAACAUGGAAAACAUUUGUUGCCUCCGUGUGAC
.....(((((..(..------..))))))(((((((((...)))))))))(((((...))))).....(((((((.(((....)))...)))))))... ( -35.50)
>DroSec_CAF1 39534 88 - 1
AGUUUUCCCAAUGGA------GACCGGGU-----AGACUUUGUCUCAUGUGACGCUGUGCGUCGGCAAACAUGGAAAACAUUUGUUGCCUCCGUGUGAC
(((((.(((...(..------..).))).-----)))))..(((.((((.(((((...)))))(((((..(((.....)))...)))))..)))).))) ( -29.50)
>DroSim_CAF1 40698 88 - 1
AGUUUUCCCAAUGGA------GACCGGGU-----AGACUUUGUCUCAUGUGACGCUGUGCGUCGGCAAACAUGGAAAACAUUUGUUGCCUCCGUGUGAC
(((((.(((...(..------..).))).-----)))))..(((.((((.(((((...)))))(((((..(((.....)))...)))))..)))).))) ( -29.50)
>DroEre_CAF1 40987 94 - 1
AGUUUUCCCAAUGGAGCAGCGGACUGGGU-----AGACUUUGUCUCAUGUGACGCUGUGCGUCGACAAACAUGGCAAACAUUUGUUGCCUCCGUGUGAC
.....((...((((((((((((((..((.-----...))..))))((((((((((...))))).....)))))..........)))).))))))..)). ( -27.10)
>DroYak_CAF1 41596 88 - 1
AGUUUUCCCAACGGA------GACUGGGU-----AGACUUUGUCUCAUGUGACGCGGUGCGUCGGCAAACAUGGAAAACAUUUGUUGCCUCCGUGUGAC
(((((.((((..(..------..))))).-----)))))..(((.((((.(((((...)))))(((((..(((.....)))...)))))..)))).))) ( -31.00)
>consensus
AGUUUUCCCAAUGGA______GACUGGGU_____AGACUUUGUCUCAUGUGACGCUGUGCGUCGGCAAACAUGGAAAACAUUUGUUGCCUCCGUGUGAC
(((((.(((................)))......)))))..(((.((((.(((((...)))))(((((..(((.....)))...)))))..)))).))) (-22.35 = -22.55 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:52 2006