Locus 8748

Sequence ID	3R_DroMel_CAF1
Location	23,359,787 – 23,359,900
Length	113
Max. P	0.999019

overview

Window 3

Location	23,359,787 – 23,359,900
Length	113
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	95.40
Mean single sequence MFE	-24.04
Consensus MFE	-22.38
Energy contribution	-21.26
Covariance contribution	-1.12
Combinations/Pair	1.21
Mean z-score	-2.10
Structure conservation index	0.93
SVM decision value	3.33
SVM RNA-class probability	0.999019
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23359787 113 + 27905053
UGCACAACAAUAGAGUAUUUACUGCACUUUAAUGCAUUUUUUGUCACUUCUGUUUACCACGCACGUUCAGCCUUGACACAAUUCAGCUGUUAACUGUGCGUAUACGCAAUAUU
(((.....((((((((((....((((......))))......)).)).))))))....(((((((((((((..(((......)))))))..))).))))))....)))..... ( -23.20)
>DroSec_CAF1 20276 113 + 1
UGCACAACAAUAGAGUAUUUACUGCACUUUAAUGCAUUUUUUGUCACUUCUGUUUACCACGCACGUUCAGCCUUGACACAAUUCAGCUGUUAACUGUGCGUAUACGCAAUAUU
(((.....((((((((((....((((......))))......)).)).))))))....(((((((((((((..(((......)))))))..))).))))))....)))..... ( -23.20)
>DroSim_CAF1 20691 113 + 1
UGCACAACAAUAGAGUAUUUACUGCACUUUAAUGCAUUUUUUGUCACUUCUGUUUACCACGCACGUUCAGCCUUGACACAAUUCAGCUGUUAACUGUGCGUAUACGCAAUAUU
(((.....((((((((((....((((......))))......)).)).))))))....(((((((((((((..(((......)))))))..))).))))))....)))..... ( -23.20)
>DroEre_CAF1 9968 113 + 1
CGCACUACAAUAGAGCAUUUACUGCAUUUUAAUGCAUUUUUUGUCACUUCUGUUUACCACGCGCAUUCAGCCUUGACACAAUUCAGCUGUUAACUGUGCGUAUACGCAAUAUU
.((.....(((((((((.....(((((....))))).....)))....))))))....(((((((..((((..(((......))))))).....)))))))....))...... ( -25.10)
>DroYak_CAF1 21522 112 + 1
UGUAUAACAGCAGAGCAUUUACUGCACUUUACUGCAUUU-UUGUCACUUCUGUUUACCACGCACAUUCAGCCUUGACACAAUUCAGCUGUUAACUGUGCGUAUACGCAAUAUU
.(((((((((.((.(((.....((((......))))...-.)))..)).)))))....(((((((..((((..(((......))))))).....)))))))))))........ ( -25.50)
>consensus
UGCACAACAAUAGAGUAUUUACUGCACUUUAAUGCAUUUUUUGUCACUUCUGUUUACCACGCACGUUCAGCCUUGACACAAUUCAGCUGUUAACUGUGCGUAUACGCAAUAUU
.((.....(((((((((.....((((......)))).....))....)))))))....(((((((..((((..(((......))))))).....)))))))....))...... (-22.38 = -21.26 +  -1.12)

alignment

secondary structure

dotplot

Window 4

Location	23,359,787 – 23,359,900
Length	113
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	95.40
Mean single sequence MFE	-27.15
Consensus MFE	-24.34
Energy contribution	-24.26
Covariance contribution	-0.08
Combinations/Pair	1.13
Mean z-score	-1.59
Structure conservation index	0.90
SVM decision value	1.44
SVM RNA-class probability	0.954024
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23359787 113 - 27905053
AAUAUUGCGUAUACGCACAGUUAACAGCUGAAUUGUGUCAAGGCUGAACGUGCGUGGUAAACAGAAGUGACAAAAAAUGCAUUAAAGUGCAGUAAAUACUCUAUUGUUGUGCA
.....((((..(((((((.(((..(((((............)))))))))))))))...(((((.((..........(((((....))))).........)).))))).)))) ( -26.51)
>DroSec_CAF1 20276 113 - 1
AAUAUUGCGUAUACGCACAGUUAACAGCUGAAUUGUGUCAAGGCUGAACGUGCGUGGUAAACAGAAGUGACAAAAAAUGCAUUAAAGUGCAGUAAAUACUCUAUUGUUGUGCA
.....((((..(((((((.(((..(((((............)))))))))))))))...(((((.((..........(((((....))))).........)).))))).)))) ( -26.51)
>DroSim_CAF1 20691 113 - 1
AAUAUUGCGUAUACGCACAGUUAACAGCUGAAUUGUGUCAAGGCUGAACGUGCGUGGUAAACAGAAGUGACAAAAAAUGCAUUAAAGUGCAGUAAAUACUCUAUUGUUGUGCA
.....((((..(((((((.(((..(((((............)))))))))))))))...(((((.((..........(((((....))))).........)).))))).)))) ( -26.51)
>DroEre_CAF1 9968 113 - 1
AAUAUUGCGUAUACGCACAGUUAACAGCUGAAUUGUGUCAAGGCUGAAUGCGCGUGGUAAACAGAAGUGACAAAAAAUGCAUUAAAAUGCAGUAAAUGCUCUAUUGUAGUGCG
.....((((....))))((((.....)))).(((.(((((...(((..(((.....)))..)))...)))))...)))((((((.((((.(((....))).)))).)))))). ( -27.80)
>DroYak_CAF1 21522 112 - 1
AAUAUUGCGUAUACGCACAGUUAACAGCUGAAUUGUGUCAAGGCUGAAUGUGCGUGGUAAACAGAAGUGACAA-AAAUGCAGUAAAGUGCAGUAAAUGCUCUGCUGUUAUACA
...........((((((((.....(((((............)))))..))))))))((((((((.((.(....-...((((......)))).......).)).))))).))). ( -28.44)
>consensus
AAUAUUGCGUAUACGCACAGUUAACAGCUGAAUUGUGUCAAGGCUGAACGUGCGUGGUAAACAGAAGUGACAAAAAAUGCAUUAAAGUGCAGUAAAUACUCUAUUGUUGUGCA
...........(((((((.(((..(((((............)))))))))))))))((((((((.((.(........(((((....))))).......).)).))))).))). (-24.34 = -24.26 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:18:49 2006