Locus 23

Sequence ID	3L_DroMel_CAF1
Location	90,607 – 90,756
Length	149
Max. P	0.842543

overview

Window 7

Location	90,607 – 90,721
Length	114
Sequences	3
Columns	118
Reading direction	forward
Mean pairwise identity	88.07
Mean single sequence MFE	-26.83
Consensus MFE	-18.40
Energy contribution	-19.40
Covariance contribution	1.00
Combinations/Pair	1.07
Mean z-score	-3.12
Structure conservation index	0.69
SVM decision value	0.66
SVM RNA-class probability	0.813849
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 90607 114 + 23771897
GGUUUGGUCAAUAAAACAAACAACAAAAAAUAAAAGUGUGCGAGUGGCUGUACGCAAAUCAGGGCAUAUAUGGAUACACA----UACAUAAAAACAUACAUAAGUAUGCUUGGAACAC
.(((((..........)))))..............(((((((......)))))))...(((((.....((((......))----))........(((((....))))))))))..... ( -20.80)
>DroSec_CAF1 35992 116 + 1
GGUUUGGUCAACAAAACAAACAACAAAAAAUGAAAGUGUGAGAGCGGCUGCUCGCAAACCAGGGCAUAUACAUAUGUACAUAUGUACAUAAGUACAU--AUAAGUAUGCUUGAAACAC
((((((.................((....((....)).)).((((....)))).)))))).((((((((..((((((((.(((....))).))))))--))..))))))))....... ( -30.90)
>DroSim_CAF1 41157 116 + 1
GGUUUGGUCAACAAAACAAACAACAAAAAAUAAAAGUGUGAGAGCGGCUGUACGCAAACCAGGGCAUAUACAUAUGUACAUAUGUACAUAAGUACAU--AUAAGUAUGCUUGAAACAC
.(((((..........)))))..............((((....(((......)))......((((((((..((((((((.(((....))).))))))--))..))))))))...)))) ( -28.80)
>consensus
GGUUUGGUCAACAAAACAAACAACAAAAAAUAAAAGUGUGAGAGCGGCUGUACGCAAACCAGGGCAUAUACAUAUGUACAUAUGUACAUAAGUACAU__AUAAGUAUGCUUGAAACAC
.(((((..........)))))..............((((....(((......)))......((((((((((.(((((((....))))))).))..........))))))))...)))) (-18.40 = -19.40 +   1.00)

alignment

secondary structure

dotplot

Window 8

Location	90,646 – 90,756
Length	110
Sequences	3
Columns	114
Reading direction	reverse
Mean pairwise identity	87.06
Mean single sequence MFE	-30.61
Consensus MFE	-24.10
Energy contribution	-23.89
Covariance contribution	-0.21
Combinations/Pair	1.18
Mean z-score	-2.48
Structure conservation index	0.79
SVM decision value	0.76
SVM RNA-class probability	0.842543
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 90646 110 - 23771897
GUUCUCGGAAAGUGCUCUGCAUUAAUUAUGGGAAUGUGUUCCAAGCAUACUUAUGUAUGUUUUUAUGUA----UGUGUAUCCAUAUAUGCCCUGAUUUGCGUACAGCCACUCGC
......((...((((...(((..(((((.(((..........((((((((....)))))))).((((((----((......)))))))))))))))))))))))..))...... ( -26.00)
>DroSec_CAF1 36031 112 - 1
AUUCCCGCAAAGUGCUCUGCAUUAAUUAUGGGAAUGUGUUUCAAGCAUACUUAU--AUGUACUUAUGUACAUAUGUACAUAUGUAUAUGCCCUGGUUUGCGAGCAGCCGCUCUC
(((((((.(((((((...)))))..)).)))))))(((..(((.(((((..(((--((((((.(((....))).)))))))))..)))))..)))..)))((((....)))).. ( -35.20)
>DroSim_CAF1 41196 112 - 1
AUUCCCGCAAAGUGCUCUGCAUUAAUUAUGGGAAUGUGUUUCAAGCAUACUUAU--AUGUACUUAUGUACAUAUGUACAUAUGUAUAUGCCCUGGUUUGCGUACAGCCGCUCUC
(((((((.(((((((...)))))..)).)))))))(((......(((.(((..(--((((((.(((((((....))))))).)))))))....))).))).......))).... ( -30.62)
>consensus
AUUCCCGCAAAGUGCUCUGCAUUAAUUAUGGGAAUGUGUUUCAAGCAUACUUAU__AUGUACUUAUGUACAUAUGUACAUAUGUAUAUGCCCUGGUUUGCGUACAGCCGCUCUC
(((((((...(((((...))))).....)))))))(((......(((.(((.....((((((.(((((((....))))))).)))))).....))).))).......))).... (-24.10 = -23.89 +  -0.21)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:30:07 2006