Locus 5533

Sequence ID	3L_DroMel_CAF1
Location	15,191,442 – 15,191,540
Length	98
Max. P	0.983910

overview

Window 2

Location	15,191,442 – 15,191,540
Length	98
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	87.20
Mean single sequence MFE	-29.91
Consensus MFE	-23.70
Energy contribution	-24.82
Covariance contribution	1.12
Combinations/Pair	1.19
Mean z-score	-2.43
Structure conservation index	0.79
SVM decision value	1.79
SVM RNA-class probability	0.977585
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15191442 98 + 23771897
UCACAUUUUUUGUUUUUAGUG-UUUAUUUGGCCCUUGCCCCACUGGGCACGGCCACUUUUUAAUUGGGUUGGGCUCGGGAUGAGUUUCCCUCGACCCAA
..(((((..........))))-).....(((((..(((((....))))).)))))........(((((((((....((((......))))))))))))) ( -33.50)
>DroSec_CAF1 80974 98 + 1
UCCAAUUUUUUGUUUUUAGUG-UUUAUUUGGCCCUUGCCCCACUGGGCACGGCCACUUUUUAAUUGGGUUGGGCACGGGAUGAGUUUCCCUCGACCCAA
.....................-......(((((..(((((....))))).)))))........(((((((((....((((......))))))))))))) ( -33.00)
>DroSim_CAF1 86452 98 + 1
UCAAAUUUUUUGUUUUUAGUG-UUUAUUUGGCCCUUGCCCCACUGGGCACGGCCACUUUUUAAUUGGGUUGGGCACGGGAUGAGUUUCCCUCGACCCAA
.....................-......(((((..(((((....))))).)))))........(((((((((....((((......))))))))))))) ( -33.00)
>DroYak_CAF1 84163 97 + 1
UCACAUUUUUUGUUUUUAGUG-UUUACUUGGCCCUUGCCCCACUGGGCACGGCCACUUUUUAAUUGGGUUUGGCUCGGGAUGAGUUUC-CGCGGCCCGA
..............((((((.-......(((((..(((((....))))).))))).......))))))...(((((((((.....)))-)).))))... ( -28.84)
>DroAna_CAF1 75923 96 + 1
UCUCAUUUUUUGUUUAUAGUGGUAUACUCGGCCCUUUCCCCUCGGGGCUCGGUCACUUUAUAAUUGGGUUUGGCUCUGGAUUAAUAACCCUAG---CAU
.((((....((((....((((....(((.((((((........)))))).)))))))..)))).))))....(((..((........))..))---).. ( -21.20)
>consensus
UCACAUUUUUUGUUUUUAGUG_UUUAUUUGGCCCUUGCCCCACUGGGCACGGCCACUUUUUAAUUGGGUUGGGCUCGGGAUGAGUUUCCCUCGACCCAA
.............................((((..(((((....))))).))))..........(((((((((....(((......)))))))))))). (-23.70 = -24.82 +   1.12)

alignment

secondary structure

dotplot

Window 3

Location	15,191,442 – 15,191,540
Length	98
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	87.20
Mean single sequence MFE	-30.01
Consensus MFE	-21.28
Energy contribution	-23.40
Covariance contribution	2.12
Combinations/Pair	1.11
Mean z-score	-3.42
Structure conservation index	0.71
SVM decision value	1.96
SVM RNA-class probability	0.983910
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15191442 98 - 23771897
UUGGGUCGAGGGAAACUCAUCCCGAGCCCAACCCAAUUAAAAAGUGGCCGUGCCCAGUGGGGCAAGGGCCAAAUAAA-CACUAAAAACAAAAAAUGUGA
((((((...((((......))))..)))))).............(((((.(((((....)))))..)))))......-(((..............))). ( -34.04)
>DroSec_CAF1 80974 98 - 1
UUGGGUCGAGGGAAACUCAUCCCGUGCCCAACCCAAUUAAAAAGUGGCCGUGCCCAGUGGGGCAAGGGCCAAAUAAA-CACUAAAAACAAAAAAUUGGA
((((((...((((......))))..)))))).((((((......(((((.(((((....)))))..)))))..((..-...)).........)))))). ( -35.40)
>DroSim_CAF1 86452 98 - 1
UUGGGUCGAGGGAAACUCAUCCCGUGCCCAACCCAAUUAAAAAGUGGCCGUGCCCAGUGGGGCAAGGGCCAAAUAAA-CACUAAAAACAAAAAAUUUGA
((((((...((((......))))..)))))).............(((((.(((((....)))))..)))))......-..................... ( -33.00)
>DroYak_CAF1 84163 97 - 1
UCGGGCCGCG-GAAACUCAUCCCGAGCCAAACCCAAUUAAAAAGUGGCCGUGCCCAGUGGGGCAAGGGCCAAGUAAA-CACUAAAAACAAAAAAUGUGA
...(((((.(-((......))))).)))................(((((.(((((....)))))..)))))......-(((..............))). ( -30.34)
>DroAna_CAF1 75923 96 - 1
AUG---CUAGGGUUAUUAAUCCAGAGCCAAACCCAAUUAUAAAGUGACCGAGCCCCGAGGGGAAAGGGCCGAGUAUACCACUAUAAACAAAAAAUGAGA
(((---((.(((((...............))))).............((...(((....)))...))....)))))....................... ( -17.26)
>consensus
UUGGGUCGAGGGAAACUCAUCCCGAGCCCAACCCAAUUAAAAAGUGGCCGUGCCCAGUGGGGCAAGGGCCAAAUAAA_CACUAAAAACAAAAAAUGUGA
.(((((...((((......))))..)))))..............(((((.(((((....)))))..)))))............................ (-21.28 = -23.40 +   2.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:35 2006