Locus 79

Sequence ID	4_DroMel_CAF1
Location	577,119 – 577,209
Length	90
Max. P	0.987804

overview

Window 6

Location	577,119 – 577,209
Length	90
Sequences	4
Columns	90
Reading direction	forward
Mean pairwise identity	74.86
Mean single sequence MFE	-22.09
Consensus MFE	-15.94
Energy contribution	-16.12
Covariance contribution	0.19
Combinations/Pair	1.18
Mean z-score	-1.66
Structure conservation index	0.72
SVM decision value	0.92
SVM RNA-class probability	0.881835
Prediction	RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 577119 90 + 1281640
AGGAUUCUACAGGUACGCACAUGAUUAAAGCUUGGAAGGGAUUAGUCAUUUUUGAGCCCGAUAAGGCGGAGUUCCGACUACAAGGGCAUU
..((((((.(((((...............)))))...))))))..(((....)))((((....((.(((....))).))....))))... ( -20.86)
>DroSec_CAF1 7466 73 + 1
AGGAUUUU-----------------CGAAGCUUCGAAGGGAUUAGCCAUUUUUGAGCCCAAUAAGUCGGAGUUCCGACUACAAGGGCAUU
.((.((((-----------------(((....)))))))......))........((((....((((((....))))))....))))... ( -23.70)
>DroSim_CAF1 7333 73 + 1
AGGAUUUU-----------------CGAAGCUUCGAAGGGAUUAGCCAUUUUUGAGCCCAAUAAGUCGGAGUUCCGACUACAAGGGCAUU
.((.((((-----------------(((....)))))))......))........((((....((((((....))))))....))))... ( -23.70)
>DroYak_CAF1 8056 84 + 1
AUGAUUUUACAGGUACGCAAAUUA------AUUUAAAGGGAUCAGUCAAUUUUGAACCCGACAAGUCGGAGUUCCGACUACAAGGGCAGU
................((......------.......(((.((((......)))).)))....((((((....))))))......))... ( -20.10)
>consensus
AGGAUUUU_________________CGAAGCUUCGAAGGGAUUAGCCAUUUUUGAGCCCAAUAAGUCGGAGUUCCGACUACAAGGGCAUU
................................(((((.((.....))...)))))((((....((((((....))))))....))))... (-15.94 = -16.12 +   0.19)

alignment

secondary structure

dotplot

Window 7

Location	577,119 – 577,209
Length	90
Sequences	4
Columns	90
Reading direction	reverse
Mean pairwise identity	74.86
Mean single sequence MFE	-18.75
Consensus MFE	-16.36
Energy contribution	-16.43
Covariance contribution	0.06
Combinations/Pair	1.10
Mean z-score	-1.78
Structure conservation index	0.87
SVM decision value	2.09
SVM RNA-class probability	0.987804
Prediction	RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 577119 90 - 1281640
AAUGCCCUUGUAGUCGGAACUCCGCCUUAUCGGGCUCAAAAAUGACUAAUCCCUUCCAAGCUUUAAUCAUGUGCGUACCUGUAGAAUCCU
...((((....((.(((....))).))....)))).((...((((.(((...((....))..))).)))).))................. ( -14.10)
>DroSec_CAF1 7466 73 - 1
AAUGCCCUUGUAGUCGGAACUCCGACUUAUUGGGCUCAAAAAUGGCUAAUCCCUUCGAAGCUUCG-----------------AAAAUCCU
...((((....((((((....))))))....))))..................(((((....)))-----------------))...... ( -21.70)
>DroSim_CAF1 7333 73 - 1
AAUGCCCUUGUAGUCGGAACUCCGACUUAUUGGGCUCAAAAAUGGCUAAUCCCUUCGAAGCUUCG-----------------AAAAUCCU
...((((....((((((....))))))....))))..................(((((....)))-----------------))...... ( -21.70)
>DroYak_CAF1 8056 84 - 1
ACUGCCCUUGUAGUCGGAACUCCGACUUGUCGGGUUCAAAAUUGACUGAUCCCUUUAAAU------UAAUUUGCGUACCUGUAAAAUCAU
...((((....((((((....))))))....)))).........................------...((((((....))))))..... ( -17.50)
>consensus
AAUGCCCUUGUAGUCGGAACUCCGACUUAUCGGGCUCAAAAAUGACUAAUCCCUUCGAAGCUUCG_________________AAAAUCCU
...((((....((((((....))))))....))))....................................................... (-16.36 = -16.43 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:58 2006