Locus 2676

Sequence ID	X_DroMel_CAF1
Location	7,172,846 – 7,172,977
Length	131
Max. P	0.960985

overview

Window 3

Location	7,172,846 – 7,172,938
Length	92
Sequences	3
Columns	92
Reading direction	forward
Mean pairwise identity	99.27
Mean single sequence MFE	-28.07
Consensus MFE	-27.60
Energy contribution	-27.60
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.04
Structure conservation index	0.98
SVM decision value	0.99
SVM RNA-class probability	0.895163
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7172846 92 + 22224390
CAUCGAACUGGGUGCAGUGGGGUUUUGGGGUGGAUCGGGAGGAGAUAGUCCUAGUUUUUAUUUGUCCCAGAACUGUUGCUGUUUUCAAUUUA
....(((.((((.((((..(((((((((((..(((..(((..((......))..)))..)))..)))))))))).)..)))).)))).))). ( -31.20)
>DroSec_CAF1 3070 91 + 1
CAUCGAACUGGGUGCAGUGGGGUU-UGGGGUGGAUCGGGAGGAGAUAGUCCUAGUUUUUAUUUGUCCCAGAACUGUUGCUGUUUUCAAUUUA
....(((.((((.((((..(((((-(((((..(((..(((..((......))..)))..)))..)))))).))).)..)))).)))).))). ( -26.50)
>DroSim_CAF1 3063 91 + 1
CAUCGAACUGGGUGCAGUGGGGUU-UGGGGUGGAUCGGGAGGAGAUAGUCCUAGUUUUUAUUUGUCCCAGAACUGUUGCUGUUUUCAAUUUA
....(((.((((.((((..(((((-(((((..(((..(((..((......))..)))..)))..)))))).))).)..)))).)))).))). ( -26.50)
>consensus
CAUCGAACUGGGUGCAGUGGGGUU_UGGGGUGGAUCGGGAGGAGAUAGUCCUAGUUUUUAUUUGUCCCAGAACUGUUGCUGUUUUCAAUUUA
....(((.((((.((((..(((((.(((((..(((..(((..((......))..)))..)))..))))).)))).)..)))).)))).))). (-27.60 = -27.60 +  -0.00)

alignment

secondary structure

dotplot

Window 4

Location	7,172,858 – 7,172,977
Length	119
Sequences	3
Columns	119
Reading direction	forward
Mean pairwise identity	98.87
Mean single sequence MFE	-35.10
Consensus MFE	-33.37
Energy contribution	-33.37
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.71
Structure conservation index	0.95
SVM decision value	1.52
SVM RNA-class probability	0.960985
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7172858 119 + 22224390
UGCAGUGGGGUUUUGGGGUGGAUCGGGAGGAGAUAGUCCUAGUUUUUAUUUGUCCCAGAACUGUUGCUGUUUUCAAUUUAAUUCAACACAACUUGUUGACAUGUUAAUUUGGAUUUUCC
.((((..(((((((((((..(((..(((..((......))..)))..)))..)))))))))).)..)))).(((((.(((((((((((.....))))))...))))).)))))...... ( -37.10)
>DroSec_CAF1 3082 117 + 1
UGCAGUGGGGUU-UGGGGUGGAUCGGGAGGAGAUAGUCCUAGUUUUUAUUUGUCCCAGAACUGUUGCUGUUUUCAAUUUAAUUCAACA-AACUUGUUGACAUGUUAAUUUGGAUUUUCC
.((((..(..((-(((((..(((..(((..((......))..)))..)))..))))))).)..))))....(((((.(((((((((((-....))))))...))))).)))))...... ( -34.10)
>DroSim_CAF1 3075 117 + 1
UGCAGUGGGGUU-UGGGGUGGAUCGGGAGGAGAUAGUCCUAGUUUUUAUUUGUCCCAGAACUGUUGCUGUUUUCAAUUUAAUUCAACA-AACUUGUUGACAUGUUAAUUUGGAUUUUCC
.((((..(..((-(((((..(((..(((..((......))..)))..)))..))))))).)..))))....(((((.(((((((((((-....))))))...))))).)))))...... ( -34.10)
>consensus
UGCAGUGGGGUU_UGGGGUGGAUCGGGAGGAGAUAGUCCUAGUUUUUAUUUGUCCCAGAACUGUUGCUGUUUUCAAUUUAAUUCAACA_AACUUGUUGACAUGUUAAUUUGGAUUUUCC
.((((..(((((.(((((..(((..(((..((......))..)))..)))..))))).)))).)..)))).(((((.(((((((((((.....))))))...))))).)))))...... (-33.37 = -33.37 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:43 2006