Locus 68

Sequence ID	3R_DroMel_CAF1
Location	467,687 – 467,807
Length	120
Max. P	0.998136

overview

Window 1

Location	467,687 – 467,807
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	90.00
Mean single sequence MFE	-28.88
Consensus MFE	-24.64
Energy contribution	-24.48
Covariance contribution	-0.16
Combinations/Pair	1.26
Mean z-score	-2.56
Structure conservation index	0.85
SVM decision value	3.01
SVM RNA-class probability	0.998136
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 467687 120 + 27905053
UAGGGUUGUCGCCGGCCAUCAACAAUCCAAAUGAACUCCUACGGUUUGUAGACAAUAUUAAAAACUGAAUUUAACUGCCUUCCCACAAGAAAUCACCAACACAAAGGGAGCGACAACCCA
..((((((((((.(((..(((..........))).......((((((.(((......))).)))))).........))).((((.....................)))))))))))))). ( -31.20)
>DroSim_CAF1 19081 120 + 1
UAGGGUUGUCGCCGGCCAUCAACAAUCCAAAUGAACUCCUACGGUUUGUAGACAAUAUUAAAAACUGAAUUUAACUGCCUUCCCACAAGAAAUCACCAACACAAAGGGAGCGACAACCCA
..((((((((((.(((..(((..........))).......((((((.(((......))).)))))).........))).((((.....................)))))))))))))). ( -31.20)
>DroEre_CAF1 24252 120 + 1
UAGGGUUGUCGCCGGUCAUCAACAAUCCAAAUGAACUCCUACGGUUUGUAGACAAUAUUAAAAACUGUAUUUAACUGCCUUCCCACAAGAAAUCACCAACACAAAGGGAGCGACAACCCA
..((((((((((.(((..(((..........))).....((((((((.(((......))).)))))))).......))).((((.....................)))))))))))))). ( -31.40)
>DroYak_CAF1 25211 119 + 1
UAGGGCUGUCGCCGGUCAUCAACAAUCCAAAUGAGCUCCUACGGUUUGUAAACAAUAUUAAAAACUGAAUUUAACUGCCUUCCCAUAAGAAAUACCAAACACA-AGGGAGCGACAACCCA
..(((.((((...((...........))......((((((.((((((.(((......))).))))))............(((......)))............-.)))))))))).))). ( -26.60)
>DroAna_CAF1 17399 117 + 1
CAGGGUGUUCGCCGGCCAGCA-GAAUCCAAAUGAACUCCUACGGUUUGUAGACCA-AUUGAAUAUUGUAUUUAGCCGCUUU-CCACAAGAAAUCACCAACACAAAAGGAGCGACAGCCUG
((((.(((.(((.((..(((.-....................((((....)))).-.(((((((...)))))))..)))..-))...........((.........)).)))))).)))) ( -24.00)
>consensus
UAGGGUUGUCGCCGGCCAUCAACAAUCCAAAUGAACUCCUACGGUUUGUAGACAAUAUUAAAAACUGAAUUUAACUGCCUUCCCACAAGAAAUCACCAACACAAAGGGAGCGACAACCCA
..((((((((((.(((..............(..((((.....))))..)........(((((.......)))))..))).((((.....................)))))))))))))). (-24.64 = -24.48 +  -0.16)

alignment

secondary structure

dotplot

Window 2

Location	467,687 – 467,807
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	90.00
Mean single sequence MFE	-36.95
Consensus MFE	-28.98
Energy contribution	-30.34
Covariance contribution	1.36
Combinations/Pair	1.10
Mean z-score	-2.04
Structure conservation index	0.78
SVM decision value	1.12
SVM RNA-class probability	0.917619
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 467687 120 - 27905053
UGGGUUGUCGCUCCCUUUGUGUUGGUGAUUUCUUGUGGGAAGGCAGUUAAAUUCAGUUUUUAAUAUUGUCUACAAACCGUAGGAGUUCAUUUGGAUUGUUGAUGGCCGGCGACAACCCUA
.(((((((((((((.((.((.(..((((.(((((((((..(((((((((((.......))))))..))))).....))))))))).))))..).))....)).))..))))))))))).. ( -39.30)
>DroSim_CAF1 19081 120 - 1
UGGGUUGUCGCUCCCUUUGUGUUGGUGAUUUCUUGUGGGAAGGCAGUUAAAUUCAGUUUUUAAUAUUGUCUACAAACCGUAGGAGUUCAUUUGGAUUGUUGAUGGCCGGCGACAACCCUA
.(((((((((((((.((.((.(..((((.(((((((((..(((((((((((.......))))))..))))).....))))))))).))))..).))....)).))..))))))))))).. ( -39.30)
>DroEre_CAF1 24252 120 - 1
UGGGUUGUCGCUCCCUUUGUGUUGGUGAUUUCUUGUGGGAAGGCAGUUAAAUACAGUUUUUAAUAUUGUCUACAAACCGUAGGAGUUCAUUUGGAUUGUUGAUGACCGGCGACAACCCUA
.(((((((((((.(((((.((..((......))..)).)))))..((((...(((((((.........(((((.....))))).........)))))))...)))).))))))))))).. ( -37.27)
>DroYak_CAF1 25211 119 - 1
UGGGUUGUCGCUCCCU-UGUGUUUGGUAUUUCUUAUGGGAAGGCAGUUAAAUUCAGUUUUUAAUAUUGUUUACAAACCGUAGGAGCUCAUUUGGAUUGUUGAUGACCGGCGACAGCCCUA
.(((((((((((((..-((.(((((...(..(....)..)(((((((((((.......))))))..))))).)))))))..)))))...........((((.....)))))))))))).. ( -36.60)
>DroAna_CAF1 17399 117 - 1
CAGGCUGUCGCUCCUUUUGUGUUGGUGAUUUCUUGUGG-AAAGCGGCUAAAUACAAUAUUCAAU-UGGUCUACAAACCGUAGGAGUUCAUUUGGAUUC-UGCUGGCCGGCGAACACCCUG
((((.(((((((....((((((((((..((((.....)-)))...))).)))))))........-.(((((((.....)))(((((((....))))))-)...)))))))).))).)))) ( -32.30)
>consensus
UGGGUUGUCGCUCCCUUUGUGUUGGUGAUUUCUUGUGGGAAGGCAGUUAAAUUCAGUUUUUAAUAUUGUCUACAAACCGUAGGAGUUCAUUUGGAUUGUUGAUGGCCGGCGACAACCCUA
.(((((((((((............((((.(((((((((..(((((((((((.......))))))..))))).....))))))))).))))..((.((......))))))))))))))).. (-28.98 = -30.34 +   1.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:09 2006