Locus 4247

Sequence ID	X_DroMel_CAF1
Location	11,141,475 – 11,141,589
Length	114
Max. P	0.955152

overview

Window 9

Location	11,141,475 – 11,141,589
Length	114
Sequences	4
Columns	115
Reading direction	forward
Mean pairwise identity	91.70
Mean single sequence MFE	-23.43
Consensus MFE	-19.19
Energy contribution	-19.25
Covariance contribution	0.06
Combinations/Pair	1.10
Mean z-score	-1.91
Structure conservation index	0.82
SVM decision value	0.68
SVM RNA-class probability	0.821416
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11141475 114 + 22224390
CA-UUUUAAGCAUCGUAACAUUUUCGACUGUAUAUUUUUGAUUGUUUUACCACUUUAUCUGCGCAUACAAAACCAAUUUGGUUCCCUUUGCCACUCGGGCGUAUGCUCGAUAAAA
..-...........((((.((..((((..........))))..)).))))...((((((.(.((((((..((((.....))))......(((.....))))))))).))))))). ( -23.00)
>DroSec_CAF1 55944 114 + 1
UA-UUUGAAGCAUCGAAACAUUUUCUACUGUAUAUUUUUGAUUGUUUUACCACUUUAUCUGCGCAUACAAAACCAAUUUGGUUCCCUUUGCCACUCGGGCGUAUGCUCGAUAAAA
..-..(((((((((((((.((...(....)...)))))))).)))))))....((((((.(.((((((..((((.....))))......(((.....))))))))).))))))). ( -25.90)
>DroEre_CAF1 56612 115 + 1
UUUUUUUAAAUGUCGAAACAUUUUCGACUGUAUAUUUUUGAUUGUUUUACCACUUUAUCUGCGCAUACAAAACCAAUUUGGUUGUCUUUGCCACUCGGGCGUAUACUCGAUAAAA
...........((((((.....)))))).........................((((((.(.(.((((..((((.....))))......(((.....))))))).).))))))). ( -20.00)
>DroYak_CAF1 59639 111 + 1
----UUUAAAUAACGAAAAAUUGUCGACUGCAUAUUUUUGAUUGUUUUACCACUUUAUCUGCGCAUACAAAACCAAUUUGGUUCCCUUUGCCACUCGGGCGUAUGCUCGAUAAAA
----...((((((((((((..(((.....)))..)))))).))))))......((((((.(.((((((..((((.....))))......(((.....))))))))).))))))). ( -24.80)
>consensus
UA_UUUUAAACAUCGAAACAUUUUCGACUGUAUAUUUUUGAUUGUUUUACCACUUUAUCUGCGCAUACAAAACCAAUUUGGUUCCCUUUGCCACUCGGGCGUAUGCUCGAUAAAA
.......(((((((((((.................)))))).)))))......((((((.(.((((((..((((.....))))......(((.....))))))))).))))))). (-19.19 = -19.25 +   0.06)

alignment

secondary structure

dotplot

Window 0

Location	11,141,475 – 11,141,589
Length	114
Sequences	4
Columns	115
Reading direction	reverse
Mean pairwise identity	91.70
Mean single sequence MFE	-25.62
Consensus MFE	-24.24
Energy contribution	-24.92
Covariance contribution	0.69
Combinations/Pair	1.09
Mean z-score	-1.90
Structure conservation index	0.95
SVM decision value	1.45
SVM RNA-class probability	0.955152
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11141475 114 - 22224390
UUUUAUCGAGCAUACGCCCGAGUGGCAAAGGGAACCAAAUUGGUUUUGUAUGCGCAGAUAAAGUGGUAAAACAAUCAAAAAUAUACAGUCGAAAAUGUUACGAUGCUUAAAA-UG
(((((((..(((((((((.....)))....((((((.....))))))))))))...)))))))((((......))))..........((((.........))))........-.. ( -25.30)
>DroSec_CAF1 55944 114 - 1
UUUUAUCGAGCAUACGCCCGAGUGGCAAAGGGAACCAAAUUGGUUUUGUAUGCGCAGAUAAAGUGGUAAAACAAUCAAAAAUAUACAGUAGAAAAUGUUUCGAUGCUUCAAA-UA
.((((((..(((((((((.....)))....((((((.....))))))))))))...))))))(.(((((((((......................)))))...)))).)...-.. ( -24.35)
>DroEre_CAF1 56612 115 - 1
UUUUAUCGAGUAUACGCCCGAGUGGCAAAGACAACCAAAUUGGUUUUGUAUGCGCAGAUAAAGUGGUAAAACAAUCAAAAAUAUACAGUCGAAAAUGUUUCGACAUUUAAAAAAA
(((((((..(((((((((.....)))......((((.....))))..))))))...)))))))((((......))))..........((((((.....))))))........... ( -26.30)
>DroYak_CAF1 59639 111 - 1
UUUUAUCGAGCAUACGCCCGAGUGGCAAAGGGAACCAAAUUGGUUUUGUAUGCGCAGAUAAAGUGGUAAAACAAUCAAAAAUAUGCAGUCGACAAUUUUUCGUUAUUUAAA----
.....(((((((((((((.....)))....((((((.....))))))))))))(((.......((((......))))......)))..))))...................---- ( -26.52)
>consensus
UUUUAUCGAGCAUACGCCCGAGUGGCAAAGGGAACCAAAUUGGUUUUGUAUGCGCAGAUAAAGUGGUAAAACAAUCAAAAAUAUACAGUCGAAAAUGUUUCGAUACUUAAAA_UA
(((((((..(((((((((.....)))....((((((.....))))))))))))...)))))))((((......))))..........((((((.....))))))........... (-24.24 = -24.92 +   0.69)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:11 2006