Locus 73

Sequence ID	4_DroMel_CAF1
Location	560,912 – 561,029
Length	117
Max. P	0.976079

overview

Window 8

Location	560,912 – 561,029
Length	117
Sequences	4
Columns	117
Reading direction	forward
Mean pairwise identity	92.88
Mean single sequence MFE	-21.09
Consensus MFE	-20.49
Energy contribution	-19.86
Covariance contribution	-0.63
Combinations/Pair	1.12
Mean z-score	-2.02
Structure conservation index	0.97
SVM decision value	1.76
SVM RNA-class probability	0.976079
Prediction	RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 560912 117 + 1281640
GUGUGUUCGGAAAUACUCAACACAUUUUGCACAAUCGUAUGCUCUUAGUUUCUCACUUGAAAUAAUAUUUACCAUAUGACAACAAAUGUUUCUUAUAUUUAGUAUAAGUAAACAAAA
(((((((.((.....)).))))))).........(((((((......(((((......))))).........))))))).......((((((((((((...))))))).)))))... ( -20.66)
>DroSec_CAF1 8591 117 + 1
GUGUGUUCGGAAAUACUAAACACAUUUUGCACAAUCGUAUGCUCUUAGUUUCUCAAUUGAAAUAAUAUUUACCAUAUGACAACAAAUGUUUCUUAUAUUUAGUAUAAGUAAACAAAA
(((((((..(.....)..))))))).........(((((((......(((((......))))).........))))))).......((((((((((((...))))))).)))))... ( -21.36)
>DroSim_CAF1 11442 117 + 1
GUGUGUUCCGAAAUACUAAACACAUUUUGCACAAUCGUAUGCUCUUAGUUUCUCAAUUGAAAUAAUAUUUACCAUAUGACAACAAAUGUUUCUUAUAUUUAGUAUAAGUAAACAAAA
(((((((..(.....)..))))))).........(((((((......(((((......))))).........))))))).......((((((((((((...))))))).)))))... ( -18.66)
>DroEre_CAF1 13782 117 + 1
GUGUGUUGAGUAAUACUAAACACAUUUUGCCCAGUUGUAUGUUCUUAGUUUCUUCAUUGAAAUAAUAUUCACUAUACAACAACAAAUGUUUCUUAUAUUCAGUAUAAGUAAACAAAA
(((((((.((.....)).)))))))........(((((((((.....(((((......))))).......)).)))))))......((((((((((((...))))))).)))))... ( -23.70)
>consensus
GUGUGUUCGGAAAUACUAAACACAUUUUGCACAAUCGUAUGCUCUUAGUUUCUCAAUUGAAAUAAUAUUUACCAUAUGACAACAAAUGUUUCUUAUAUUUAGUAUAAGUAAACAAAA
(((((((.((.....)).))))))).........(((((((......(((((......))))).........))))))).......((((((((((((...))))))).)))))... (-20.49 = -19.86 +  -0.63)

alignment

secondary structure

dotplot

Window 9

Location	560,912 – 561,029
Length	117
Sequences	4
Columns	117
Reading direction	reverse
Mean pairwise identity	92.88
Mean single sequence MFE	-23.32
Consensus MFE	-19.01
Energy contribution	-18.70
Covariance contribution	-0.31
Combinations/Pair	1.05
Mean z-score	-1.65
Structure conservation index	0.82
SVM decision value	0.16
SVM RNA-class probability	0.611263
Prediction	RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 560912 117 - 1281640
UUUUGUUUACUUAUACUAAAUAUAAGAAACAUUUGUUGUCAUAUGGUAAAUAUUAUUUCAAGUGAGAAACUAAGAGCAUACGAUUGUGCAAAAUGUGUUGAGUAUUUCCGAACACAC
...(((((....(((((.((((((.....((((((..((.((((.....)))).))..))))))...........(((((....)))))....)))))).)))))....)))))... ( -22.20)
>DroSec_CAF1 8591 117 - 1
UUUUGUUUACUUAUACUAAAUAUAAGAAACAUUUGUUGUCAUAUGGUAAAUAUUAUUUCAAUUGAGAAACUAAGAGCAUACGAUUGUGCAAAAUGUGUUUAGUAUUUCCGAACACAC
...(((((....((((((((((((.....((.(((..((.((((.....)))).))..))).))...........(((((....)))))....))))))))))))....)))))... ( -22.90)
>DroSim_CAF1 11442 117 - 1
UUUUGUUUACUUAUACUAAAUAUAAGAAACAUUUGUUGUCAUAUGGUAAAUAUUAUUUCAAUUGAGAAACUAAGAGCAUACGAUUGUGCAAAAUGUGUUUAGUAUUUCGGAACACAC
...(((((....((((((((((((.....((.(((..((.((((.....)))).))..))).))...........(((((....)))))....))))))))))))....)))))... ( -24.00)
>DroEre_CAF1 13782 117 - 1
UUUUGUUUACUUAUACUGAAUAUAAGAAACAUUUGUUGUUGUAUAGUGAAUAUUAUUUCAAUGAAGAAACUAAGAACAUACAACUGGGCAAAAUGUGUUUAGUAUUACUCAACACAC
...(((((.((((((.....)))))))))))(((((.(((((((.((.....(((((((......)))).)))..)))))))))...))))).((((((.((.....)).)))))). ( -24.20)
>consensus
UUUUGUUUACUUAUACUAAAUAUAAGAAACAUUUGUUGUCAUAUGGUAAAUAUUAUUUCAAUUGAGAAACUAAGAGCAUACGAUUGUGCAAAAUGUGUUUAGUAUUUCCGAACACAC
...(((((.((((((.....)))))))))))(((((.(((.((((.(.....(((((((......)))).))).).)))).)))...))))).((((((..(.....)..)))))). (-19.01 = -18.70 +  -0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:40 2006