Locus 8751

Sequence ID	3L_DroMel_CAF1
Location	22,865,400 – 22,865,514
Length	114
Max. P	0.713673

overview

Window 6

Location	22,865,400 – 22,865,493
Length	93
Sequences	3
Columns	118
Reading direction	forward
Mean pairwise identity	80.79
Mean single sequence MFE	-26.23
Consensus MFE	-18.14
Energy contribution	-20.25
Covariance contribution	2.11
Combinations/Pair	1.04
Mean z-score	-1.78
Structure conservation index	0.69
SVM decision value	0.38
SVM RNA-class probability	0.713673
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22865400 93 + 23771897
--------------------AUCGAUUGUGGUCCCCUCAAUGACCUACUACAACCAAAUAUGCGGCACUGCUUCAGACUCGAAUGUCAUAAAAGUGCAAAGAGUUCAAA-----UUGA
--------------------.((((((((((((........)))).))................(((((......(((......))).....)))))..........))-----)))) ( -17.60)
>DroSec_CAF1 53906 118 + 1
AACAACGUGUUGCUAUUCAAAUCGAUUUCGGUCCCCUCAAUGACCUACUACAUCCAAAUAUGGGGCACUGCCUCAGACUCGAAUGUCAUGAAAGUGCCAAGAGUUCAAAGCCACAUGA
.....(((((.(((((((...........((((........))))........(((....)))((((((...((((((......))).))).))))))..))))....))).))))). ( -31.70)
>DroSim_CAF1 57813 118 + 1
AACAACGUGUUGCUAUUCAAAUCGAUUUCGGUCCCCUCAAUGACCUACUACAUCCAAAUAUGGGGCACUGCCUUAGACUCGAAUGUCAUAAAAGUGCCAAGAGUUCAAAGCCACAUGA
.....(((((.(((((((...........((((........))))........(((....)))((((((...((((((......))).))).))))))..))))....))).))))). ( -29.40)
>consensus
AACAACGUGUUGCUAUUCAAAUCGAUUUCGGUCCCCUCAAUGACCUACUACAUCCAAAUAUGGGGCACUGCCUCAGACUCGAAUGUCAUAAAAGUGCCAAGAGUUCAAAGCCACAUGA
.....(((((.(((.......((......((((........))))..................((((((...((((((......))).))).))))))..))......))).))))). (-18.14 = -20.25 +   2.11)

alignment

secondary structure

dotplot

Window 7

Location	22,865,418 – 22,865,514
Length	96
Sequences	3
Columns	102
Reading direction	forward
Mean pairwise identity	89.22
Mean single sequence MFE	-26.20
Consensus MFE	-20.27
Energy contribution	-20.83
Covariance contribution	0.56
Combinations/Pair	1.08
Mean z-score	-2.13
Structure conservation index	0.77
SVM decision value	0.11
SVM RNA-class probability	0.587944
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22865418 96 + 23771897
AAUGACCUACUACAACCAAAUAUGCGGCACUGCUUCAGACUCGAAUGUCAUAAAAGUGCAAAGAGUUCAAA-----UUGAUUGCUGG-AGCAGUAAUUGGUU
...((((........((........)).((((((((((((((...((.(((....)))))..))))((...-----..))...))))-))))))....)))) ( -23.10)
>DroSec_CAF1 53944 102 + 1
AAUGACCUACUACAUCCAAAUAUGGGGCACUGCCUCAGACUCGAAUGUCAUGAAAGUGCCAAGAGUUCAAAGCCACAUGAUUGCAGAAAGCUGUAAUUGGUU
..(((.((.((....(((....)))((((((...((((((......))).))).)))))).)))).))).(((((....(((((((....)))))))))))) ( -29.10)
>DroSim_CAF1 57851 102 + 1
AAUGACCUACUACAUCCAAAUAUGGGGCACUGCCUUAGACUCGAAUGUCAUAAAAGUGCCAAGAGUUCAAAGCCACAUGAUUGCAGUAAGCAGUAAUUGGUU
..(((.((.((....(((....)))((((((...((((((......))).))).)))))).)))).))).(((((....(((((.....)))))...))))) ( -26.40)
>consensus
AAUGACCUACUACAUCCAAAUAUGGGGCACUGCCUCAGACUCGAAUGUCAUAAAAGUGCCAAGAGUUCAAAGCCACAUGAUUGCAGAAAGCAGUAAUUGGUU
...((((..................((((((...((((((......))).))).))))))..................((((((((....)))))))))))) (-20.27 = -20.83 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:23:43 2006