Locus 8494

Sequence ID	3R_DroMel_CAF1
Location	22,682,296 – 22,682,388
Length	92
Max. P	0.914077

overview

Window 4

Location	22,682,296 – 22,682,388
Length	92
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	86.44
Mean single sequence MFE	-23.46
Consensus MFE	-17.16
Energy contribution	-17.08
Covariance contribution	-0.08
Combinations/Pair	1.10
Mean z-score	-1.91
Structure conservation index	0.73
SVM decision value	0.47
SVM RNA-class probability	0.748618
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22682296 92 + 27905053
---UAAUUCACUAUAACUCACUUUUAUUUUUGACAGUGCACCUCUGAGCACAGGACUUCGACGUCCUGCAAAAUGAAGCGUUACCCGCUUAGUGC
---.....(((((.........((((((((.....((((........))))(((((......)))))..))))))))(((.....))).))))). ( -21.30)
>DroSec_CAF1 129924 94 + 1
UUUUACUUAACUAUAAUUCACUUUUAUUUUUGACAGUGCACCUCUGAGCACAGGACUUCGACGUCCUGCAA-AUGAAGCGUUACCCGCUUAGUGC
..................((((......((((.(.((((........))))(((((......)))))))))-)..(((((.....))))))))). ( -19.80)
>DroSim_CAF1 131319 94 + 1
UUUUACUUAAUUAAAUUUCACUUUUAUUUUUGACAGUGCUCCUCUGAGCACAGGACUUCGACGUCCUGCAA-AUGAAGCGUUACCCGCUUAGUGC
..................((((......((((.(.((((((....))))))(((((......)))))))))-)..(((((.....))))))))). ( -23.60)
>DroEre_CAF1 140069 94 + 1
UUUGACUUAACUGUACAGUGCACUUAUUUUUGACAGUGCAUUACUGAGCACAGGACUUCAACGUCCUGCAA-AUGAAGCGUUACCCGCUUAGGGC
................((((((((..........)))))))).((((((.((((((......))))))..(-(((...))))....))))))... ( -24.60)
>DroYak_CAF1 134637 94 + 1
AUUUACUUGACUGUAUAGUGCACUUAUUUUUGACAGUGCACUGCUGAGCACAGGACUUCUACGUCCUGCAA-AUGAAGCGUUACCCGCUUAGGGC
.......((((.....((((((((..........))))))))(((...((((((((......))))))...-.)).)))))))(((.....))). ( -28.00)
>consensus
UUUUACUUAACUAUAAAUCACUUUUAUUUUUGACAGUGCACCUCUGAGCACAGGACUUCGACGUCCUGCAA_AUGAAGCGUUACCCGCUUAGUGC
..................((((.(((....))).)))).....((((((..(((((......)))))((........)).......))))))... (-17.16 = -17.08 +  -0.08)

alignment

secondary structure

dotplot

Window 5

Location	22,682,296 – 22,682,388
Length	92
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	86.44
Mean single sequence MFE	-27.42
Consensus MFE	-19.56
Energy contribution	-19.48
Covariance contribution	-0.08
Combinations/Pair	1.11
Mean z-score	-2.47
Structure conservation index	0.71
SVM decision value	1.09
SVM RNA-class probability	0.914077
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22682296 92 - 27905053
GCACUAAGCGGGUAACGCUUCAUUUUGCAGGACGUCGAAGUCCUGUGCUCAGAGGUGCACUGUCAAAAAUAAAAGUGAGUUAUAGUGAAUUA---
.(((((((((.....))))((((((((((((((......)))))))((........)).............)))))))....))))).....--- ( -27.60)
>DroSec_CAF1 129924 94 - 1
GCACUAAGCGGGUAACGCUUCAU-UUGCAGGACGUCGAAGUCCUGUGCUCAGAGGUGCACUGUCAAAAAUAAAAGUGAAUUAUAGUUAAGUAAAA
((((((((((.....)))))...-..(((((((......))))))).......)))))(((((.....((....)).....)))))......... ( -24.70)
>DroSim_CAF1 131319 94 - 1
GCACUAAGCGGGUAACGCUUCAU-UUGCAGGACGUCGAAGUCCUGUGCUCAGAGGAGCACUGUCAAAAAUAAAAGUGAAAUUUAAUUAAGUAAAA
.(((((((((.....)))))..(-(((((((((......)))))((((((....)))))).).))))......)))).................. ( -26.70)
>DroEre_CAF1 140069 94 - 1
GCCCUAAGCGGGUAACGCUUCAU-UUGCAGGACGUUGAAGUCCUGUGCUCAGUAAUGCACUGUCAAAAAUAAGUGCACUGUACAGUUAAGUCAAA
((...(((((.....)))))...-..(((((((......)))))))))...(((.((((((..........))))))...)))............ ( -27.20)
>DroYak_CAF1 134637 94 - 1
GCCCUAAGCGGGUAACGCUUCAU-UUGCAGGACGUAGAAGUCCUGUGCUCAGCAGUGCACUGUCAAAAAUAAGUGCACUAUACAGUCAAGUAAAU
((((.....))))...(((....-..(((((((......)))))))....)))((((((((..........)))))))).(((......)))... ( -30.90)
>consensus
GCACUAAGCGGGUAACGCUUCAU_UUGCAGGACGUCGAAGUCCUGUGCUCAGAGGUGCACUGUCAAAAAUAAAAGUGAAAUAUAGUUAAGUAAAA
.....(((((.....)))))....(((((((((......)))))((((........))))..............))))................. (-19.56 = -19.48 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:12:42 2006