Locus 458

Sequence ID	X_DroMel_CAF1
Location	1,347,148 – 1,347,308
Length	160
Max. P	0.772782

overview

Window 1

Location	1,347,148 – 1,347,268
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	84.90
Mean single sequence MFE	-31.72
Consensus MFE	-19.88
Energy contribution	-23.70
Covariance contribution	3.82
Combinations/Pair	1.15
Mean z-score	-2.12
Structure conservation index	0.63
SVM decision value	0.22
SVM RNA-class probability	0.639371
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1347148 120 + 22224390
GCAACAGUGAAAAGUUUCCCACCCAUACUUGACGCGCUUUAACUUUUAGCCAAGUCGUUUUCACAGUUUUACAGUUUACGAGCUGAUGGAAACUGUGUGCGGCUGGCAACUAAUUUAAUA
......(((..((((...........))))..))).............((((.(((((...(((((((((.(((((....)))))...))))))))).)))))))))............. ( -33.70)
>DroSec_CAF1 7567 120 + 1
GCAACAGUGAAAAGUUUGCCACCCAUACUUGACGCGCUUUAACUUUUAGCCAAGUCGUUUUCACAGUUUCACAGUUUACGAGCUGAUGGAAACUGUGUGCGGCUGGCAACUAAUUUAAUA
.....(((.(((((((.((....((....))....))...))))))).((((.(((((...(((((((((.(((((....)))))...))))))))).))))))))).)))......... ( -37.30)
>DroSim_CAF1 10790 120 + 1
GCAACAGUGAAAAGUUUGCCACCCAUACUUGACGCGCUUUAACUUUUAGCCAAGUCGUUUUCACAGUUUCACAGUUUACGAGCUGAUGGAAACUGUGUGCGGCUGGCAACUAAUUUAAUA
.....(((.(((((((.((....((....))....))...))))))).((((.(((((...(((((((((.(((((....)))))...))))))))).))))))))).)))......... ( -37.30)
>DroEre_CAF1 7622 95 + 1
GCAACGGCGAAAAGUUUGCCACCCACACUUGAUGCGCUUCAACUUUCAGCCAAGCCGUUUUCAC--------AGUUUACGAGCUGAU-----------------GGAAACUAAUUUAAUA
.....(((..((((((.((((..((....)).)).))...))))))..))).....((((((((--------((((....))))).)-----------------)))))).......... ( -22.60)
>DroYak_CAF1 8035 112 + 1
GCCACAGUGAAAAGUUUGCCACCCACACUUGAUGCGCUUUAACUUUUAGCCAAGCCGUUUUCCC--------AGCUUACGAGCUGAUGCAAGCUGUGUGCGGCUGGAAACUAAUUUAAUA
............(((((.((((((((((....((((((.........))).............(--------((((....)))))..)))....))))).)).))))))))......... ( -27.70)
>consensus
GCAACAGUGAAAAGUUUGCCACCCAUACUUGACGCGCUUUAACUUUUAGCCAAGUCGUUUUCACAGUUU_ACAGUUUACGAGCUGAUGGAAACUGUGUGCGGCUGGCAACUAAUUUAAUA
.....((((..((((.((.....)).))))....))))..........((((.(((((...(((((((((.(((((....)))))...))))))))).)))))))))............. (-19.88 = -23.70 +   3.82)

alignment

secondary structure

dotplot

Window 2

Location	1,347,188 – 1,347,308
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	83.98
Mean single sequence MFE	-29.62
Consensus MFE	-17.46
Energy contribution	-21.84
Covariance contribution	4.38
Combinations/Pair	1.12
Mean z-score	-2.43
Structure conservation index	0.59
SVM decision value	0.53
SVM RNA-class probability	0.772782
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1347188 120 + 22224390
AACUUUUAGCCAAGUCGUUUUCACAGUUUUACAGUUUACGAGCUGAUGGAAACUGUGUGCGGCUGGCAACUAAUUUAAUAAUAACUUCAAAUGACAAUCUAAUGCCCGUCAGAGAGCAAA
..(((((.((((.(((((...(((((((((.(((((....)))))...))))))))).)))))))))........................((((............))))))))).... ( -33.80)
>DroSec_CAF1 7607 114 + 1
AACUUUUAGCCAAGUCGUUUUCACAGUUUCACAGUUUACGAGCUGAUGGAAACUGUGUGCGGCUGGCAACUAAUUUAAUAAUAACUUCAAAUGACAAUCUAAUGCCCGUCAGAG------
........((((.(((((...(((((((((.(((((....)))))...))))))))).)))))))))........................((((............))))...------ ( -33.50)
>DroSim_CAF1 10830 120 + 1
AACUUUUAGCCAAGUCGUUUUCACAGUUUCACAGUUUACGAGCUGAUGGAAACUGUGUGCGGCUGGCAACUAAUUUAAUAAUAACUUCAAAUGACAAUCUAAUGCCCGUCAGAGAGCAAA
..(((((.((((.(((((...(((((((((.(((((....)))))...))))))))).)))))))))........................((((............))))))))).... ( -35.60)
>DroEre_CAF1 7662 95 + 1
AACUUUCAGCCAAGCCGUUUUCAC--------AGUUUACGAGCUGAU-----------------GGAAACUAAUUUAAUAAUAAAUUCAAAUGACAAUCUAAUGCCCGUCAGAGAGUGGA
.((((((.........((((((((--------((((....))))).)-----------------)))))).....................((((............))))))))))... ( -19.50)
>DroYak_CAF1 8075 112 + 1
AACUUUUAGCCAAGCCGUUUUCCC--------AGCUUACGAGCUGAUGCAAGCUGUGUGCGGCUGGAAACUAAUUUAAUAAUAACUUCAAACGACAAUCUAAUGCCCGUCAGAGAGUGAA
.((((((..(((.(((((...(.(--------(((((....((....)))))))).).))))))))..........................(((............))).))))))... ( -25.70)
>consensus
AACUUUUAGCCAAGUCGUUUUCACAGUUU_ACAGUUUACGAGCUGAUGGAAACUGUGUGCGGCUGGCAACUAAUUUAAUAAUAACUUCAAAUGACAAUCUAAUGCCCGUCAGAGAGCAAA
..(((((.((((.(((((...(((((((((.(((((....)))))...))))))))).)))))))))........................((((............))))))))).... (-17.46 = -21.84 +   4.38)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:01 2006