Locus 923

Sequence ID	2L_DroMel_CAF1
Location	2,652,521 – 2,652,617
Length	96
Max. P	0.758279

overview

Window 5

Location	2,652,521 – 2,652,617
Length	96
Sequences	6
Columns	96
Reading direction	forward
Mean pairwise identity	82.08
Mean single sequence MFE	-27.31
Consensus MFE	-16.85
Energy contribution	-18.33
Covariance contribution	1.48
Combinations/Pair	1.29
Mean z-score	-2.12
Structure conservation index	0.62
SVM decision value	0.26
SVM RNA-class probability	0.656755
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2652521 96 + 22407834
UUCGCUUCCUUCGCUGUUGGCAGUUCUCGCAUUUAAUUGCAGUAUAAAUGUCUGAAAUGGCAAACACAAAGGAUGUGCGAACCGGGAUGGAAAUCU
(((((.(((((.(.((((.((..(((..(((((((.........)))))))..)))...)).))))).)))))...)))))...((((....)))) ( -27.40)
>DroSec_CAF1 73376 96 + 1
UUCGCUUCCUUCGCUGUUUGCAGCUCCCGCAUUUAAUUGCAGUAUAAAUGCCUGAAAUGGCAAACACAAAGGAUGUGCGAACCGGGAUGGAAAUCU
.....((((.((.(.(((((((..(((.(((......)))........((((......))))........)))..))))))).).)).)))).... ( -29.80)
>DroSim_CAF1 74416 96 + 1
UUCGCUUCCUUCGCUGUUUGCAGCUCCCGCAUUUAAUUGCAGUAUAAAUGCCUGAAAUGGCAAACACAAAGGAUGUGCGAACCGGGAUGGAAAUCU
.....((((.((.(.(((((((..(((.(((......)))........((((......))))........)))..))))))).).)).)))).... ( -29.80)
>DroEre_CAF1 81746 96 + 1
UUCGUUUCCUUCGCUGUUUGCAGCUUCCGCAUUUAAAUUUAGUAUGAAUGCCUGAAAUGGCAAACACAAAGGAUGUGCGAAUCGGGAUGGAAAUCU
(((((.(((((.(.(((((((...(((.(((((((.........)))))))..)))...)))))))).)))))...)))))...((((....)))) ( -29.20)
>DroYak_CAF1 76781 82 + 1
UUCGCUUCCUUUGCUGUUUGCAGCUUCCGCAUUUAAUUGCAGUAUAAAUG--------------CACAAAGGAUGUGCGAACCGGGAUGGAAAUCU
(((((.((((((((((....))))....(((((((.........))))))--------------)..))))))...)))))...((((....)))) ( -26.40)
>DroAna_CAF1 118752 84 + 1
UGCGCUUCCUUCUUUGUUUGCAGCCCCUCCAUUUAAUUGCAGCAUUAAUGCCUGAAAUAGCAACAACAAAGGACGUGGGAG------UGG------
..(((((((((((((((((((.((..............)).(((....)))........)))..)))))))))...)))))------)).------ ( -21.24)
>consensus
UUCGCUUCCUUCGCUGUUUGCAGCUCCCGCAUUUAAUUGCAGUAUAAAUGCCUGAAAUGGCAAACACAAAGGAUGUGCGAACCGGGAUGGAAAUCU
.....((((.((.(.(((((((..(((.(((......)))........((((......))))........)))..))))))).).)).)))).... (-16.85 = -18.33 +   1.48)

alignment

secondary structure

dotplot

Window 6

Location	2,652,521 – 2,652,617
Length	96
Sequences	6
Columns	96
Reading direction	reverse
Mean pairwise identity	82.08
Mean single sequence MFE	-26.07
Consensus MFE	-17.30
Energy contribution	-20.00
Covariance contribution	2.70
Combinations/Pair	1.14
Mean z-score	-2.18
Structure conservation index	0.66
SVM decision value	0.49
SVM RNA-class probability	0.758279
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2652521 96 - 22407834
AGAUUUCCAUCCCGGUUCGCACAUCCUUUGUGUUUGCCAUUUCAGACAUUUAUACUGCAAUUAAAUGCGAGAACUGCCAACAGCGAAGGAAGCGAA
...............(((((...(((((((((((.((..((((.(.((((((.........)))))))))))...)).)))).))))))).))))) ( -23.20)
>DroSec_CAF1 73376 96 - 1
AGAUUUCCAUCCCGGUUCGCACAUCCUUUGUGUUUGCCAUUUCAGGCAUUUAUACUGCAAUUAAAUGCGGGAGCUGCAAACAGCGAAGGAAGCGAA
.(.(((((.(((((((..(((((.....)))))..))).......(((((((.........)))))))))))((((....))))...))))))... ( -33.50)
>DroSim_CAF1 74416 96 - 1
AGAUUUCCAUCCCGGUUCGCACAUCCUUUGUGUUUGCCAUUUCAGGCAUUUAUACUGCAAUUAAAUGCGGGAGCUGCAAACAGCGAAGGAAGCGAA
.(.(((((.(((((((..(((((.....)))))..))).......(((((((.........)))))))))))((((....))))...))))))... ( -33.50)
>DroEre_CAF1 81746 96 - 1
AGAUUUCCAUCCCGAUUCGCACAUCCUUUGUGUUUGCCAUUUCAGGCAUUCAUACUAAAUUUAAAUGCGGAAGCUGCAAACAGCGAAGGAAACGAA
...............((((....((((((((((((((..((((..(((((.............))))).))))..))))))).)))))))..)))) ( -25.42)
>DroYak_CAF1 76781 82 - 1
AGAUUUCCAUCCCGGUUCGCACAUCCUUUGUG--------------CAUUUAUACUGCAAUUAAAUGCGGAAGCUGCAAACAGCAAAGGAAGCGAA
............((.((((((((.....))))--------------).......(((((......)))))..((((....))))....))).)).. ( -22.60)
>DroAna_CAF1 118752 84 - 1
------CCA------CUCCCACGUCCUUUGUUGUUGCUAUUUCAGGCAUUAAUGCUGCAAUUAAAUGGAGGGGCUGCAAACAAAGAAGGAAGCGCA
------...------........((((((.((((((((......))).....(((.((..((......))..)).)))))))).))))))...... ( -18.20)
>consensus
AGAUUUCCAUCCCGGUUCGCACAUCCUUUGUGUUUGCCAUUUCAGGCAUUUAUACUGCAAUUAAAUGCGGGAGCUGCAAACAGCGAAGGAAGCGAA
................((((...((((((((((((((..((((...((((((.........))))))..))))..))))))).))))))).)))). (-17.30 = -20.00 +   2.70)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:49 2006