Locus 3346

Sequence ID	2L_DroMel_CAF1
Location	9,691,993 – 9,692,124
Length	131
Max. P	0.671899

overview

Window 6

Location	9,691,993 – 9,692,098
Length	105
Sequences	5
Columns	117
Reading direction	forward
Mean pairwise identity	86.44
Mean single sequence MFE	-30.24
Consensus MFE	-19.99
Energy contribution	-21.23
Covariance contribution	1.24
Combinations/Pair	1.12
Mean z-score	-2.04
Structure conservation index	0.66
SVM decision value	0.16
SVM RNA-class probability	0.610373
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9691993 105 + 22407834
AUAUACUUCGACCAUUAGAUGCGCUUUGCUCAAGUGGAAAGAUGUGAUAAGGAAAACCCGUUUCG----------UU--UGCACUUGAGCAAAGGCUUUAAUGAACCUUUUGUGUAU
((((((......(((((((.((.(((((((((((((.(((....(((...((.....))...)))----------))--).))))))))))))))))))))))........)))))) ( -35.44)
>DroSec_CAF1 51254 115 + 1
AUACACUUCGACCAUUAGAUGCGCUAUGAUCAAGUGGAAAGAUGUGAUAAGGGAAACCAGUUUCGUACAGUAUUAUA--UGCACUUGAGCAAAUGCUUUAAUGCACAUUUUGUAUAU
...(((.((..(((((.(((........))).)))))...)).)))....((....))......((((((....((.--((((...((((....))))...)))).)).)))))).. ( -28.00)
>DroSim_CAF1 57071 115 + 1
AUACACUUCGACCAUUAGAUGCGCUAUGAUCAAGUGGAAAGAUGUGAUAAGGGAAACCAGUUUCGCACAGUAUUAUA--UGCACUUGAGCAAAGGCUUUAAUGCACAUUUUGUGUGU
((((((......(((((((.((.((.((.(((((((......(((((...((....))....)))))((........--))))))))).)).)))))))))))........)))))) ( -31.44)
>DroEre_CAF1 55982 115 + 1
AUUUACCUCGACCAUUAGAUGCGCUUUGAUCAAGUGGAAAGAUGUGAUAAGGGAAACCCGUUUCGCAUAGUAUAAAA--UGCACUUGAGCGAAGGCUUUAACGAAUCUUUUGUGUAU
..........((((..((((((.(((((.(((((((.((..((((((...((....))....))))))..)......--).))))))).)))))))........))))..)).)).. ( -28.30)
>DroYak_CAF1 51521 116 + 1
AUAUACCUCGACCAUUAGAUGCGCUUUGAUCAAGUGGAAAGAUGUGAUAAGGGAAACCCGUUUCGCAUAGUAUAAAAAGUGCACUUGAGCACUGGCU-UAAUCAACCUUUUGUGUAU
.(((((.....(((((.(((........))).)))))....((((((...((....))....)))))).)))))....((((((((((((....)))-)))..........)))))) ( -28.00)
>consensus
AUAUACUUCGACCAUUAGAUGCGCUUUGAUCAAGUGGAAAGAUGUGAUAAGGGAAACCCGUUUCGCACAGUAUAAUA__UGCACUUGAGCAAAGGCUUUAAUGAACCUUUUGUGUAU
((((((......(((((((.((.((.((.(((((((.(....(((((...((....))....)))))............).))))))).)).)))))))))))........)))))) (-19.99 = -21.23 +   1.24)

alignment

secondary structure

dotplot

Window 7

Location	9,692,030 – 9,692,124
Length	94
Sequences	5
Columns	106
Reading direction	forward
Mean pairwise identity	78.00
Mean single sequence MFE	-22.38
Consensus MFE	-11.94
Energy contribution	-12.18
Covariance contribution	0.24
Combinations/Pair	1.28
Mean z-score	-1.88
Structure conservation index	0.53
SVM decision value	0.29
SVM RNA-class probability	0.671899
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9692030 94 + 22407834
AAAGAUGUGAUAAGGAAAACCCGUUUCG----------UU--UGCACUUGAGCAAAGGCUUUAAUGAACCUUUUGUGUAUUAUCAUAGAAAAAUACACUAAUCUCC
..(((((((....((.....))(.((((----------((--.((.(((.....)))))...)))))).)(((((((......))))))).....)))..)))).. ( -15.10)
>DroSec_CAF1 51291 103 + 1
AAAGAUGUGAUAAGGGAAACCAGUUUCGUACAGUAUUAUA--UGCACUUGAGCAAAUGCUUUAAUGCACAUUUUGUAUAUUGUCAUACA-CAGUAUACUAACCUGC
.((((((((....((....)).......((.((((((...--(((......))))))))).))...))))))))(((((((((.....)-))))))))........ ( -25.50)
>DroSim_CAF1 57108 103 + 1
AAAGAUGUGAUAAGGGAAACCAGUUUCGCACAGUAUUAUA--UGCACUUGAGCAAAGGCUUUAAUGCACAUUUUGUGUGUUAUCAUACA-AAAUAUACUAAUUUGC
.....(((((...((....))....))))).(((((....--((((...((((....))))...)))).((((((((((....))))))-)))))))))....... ( -28.30)
>DroEre_CAF1 56019 101 + 1
AAAGAUGUGAUAAGGGAAACCCGUUUCGCAUAGUAUAAAA--UGCACUUGAGCGAAGGCUUUAACGAAUCUUUUGUGUAUCAUAAAAA--AUAUAUACAUUU-UCC
.((((((((....((....))((((..((((........)--)))....((((....)))).))))....(((((((...))))))).--.....)))))))-).. ( -21.40)
>DroYak_CAF1 51558 103 + 1
AAAGAUGUGAUAAGGGAAACCCGUUUCGCAUAGUAUAAAAAGUGCACUUGAGCACUGGCU-UAAUCAACCUUUUGUGUAUCUUUAGAA--AAAUAUACAUAUCCCC
((((((((((...((....))....)))))).........(((((......)))))....-........))))(((((((.(((....--))).)))))))..... ( -21.60)
>consensus
AAAGAUGUGAUAAGGGAAACCCGUUUCGCACAGUAUAAUA__UGCACUUGAGCAAAGGCUUUAAUGAACCUUUUGUGUAUUAUCAUAAA_AAAUAUACUAAUCUCC
.....(((((...((....))....)))))...................((((....)))).............(((((((..........)))))))........ (-11.94 = -12.18 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:19 2006