Locus 6289

Sequence ID	X_DroMel_CAF1
Location	15,955,613 – 15,955,773
Length	160
Max. P	0.784023

overview

Window 3

Location	15,955,613 – 15,955,733
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	96.94
Mean single sequence MFE	-42.85
Consensus MFE	-41.33
Energy contribution	-41.45
Covariance contribution	0.12
Combinations/Pair	1.08
Mean z-score	-1.75
Structure conservation index	0.96
SVM decision value	0.57
SVM RNA-class probability	0.784023
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15955613 120 - 22224390
AAUCCGGUGACGGGCAAAAAGCGAGUGCAGUGCAAUGUCUGUCUGAAGACCUUUUGCGACAAGGGUGCUCUAAAGAUUCACUUUUCGGCGGUGCAUCUCAGGGAGAUGCACAAGUGCACG
...(((....)))((.....))..(((((((((((.((((......))))...)))).)).....((((..((((.....))))..))))(((((((((...)))))))))...))))). ( -42.60)
>DroSec_CAF1 23950 120 - 1
AAUCCGGUGACGGGCAAAAAGCGAGUGCAGUGCAAUGUCUGUCUGAAGACCUUUUGCGACAAGGGUGCUCUGAAGAUUCACUUCUCGGCGGUGCAUCUCAGGGAGAUGCACAAGUGCACG
...(((....)))((.....))..(((((((((((.((((......))))...)))).)).....((((..((((.....))))..))))(((((((((...)))))))))...))))). ( -44.80)
>DroEre_CAF1 22627 120 - 1
AAUCCGGUGACGGGCAAAAAGCGAGUGCAGUGCAAUGUCUGUCUGAAGACCUUCUGCGACAAGGGUGCUCUAAAGAUUCACUUCUCGGCGGUGCAUCUCAGGGAGAUGCACAAGUGCACG
...(((....)))(((....(((((..(..((((..((((......))))....))))......)..)))...(((......)))..)).(((((((((...)))))))))...)))... ( -40.30)
>DroYak_CAF1 6041 120 - 1
AAUCCGGUGACGGGCAAGAAGCGAGUACAGUGCAAUGUCUGUCUGAAGACCUUUUGUGACAAGGGCGCUCUGAAGAUUCACUUCUCGGCGGUGCAUCUCAGGGAGAUGCACAAGUGCACG
...(((....)))((((((((.((((.(((.((...((((......))))((((((...)))))).)).)))...)))).))))).....(((((((((...)))))))))...)))... ( -43.70)
>consensus
AAUCCGGUGACGGGCAAAAAGCGAGUGCAGUGCAAUGUCUGUCUGAAGACCUUUUGCGACAAGGGUGCUCUAAAGAUUCACUUCUCGGCGGUGCAUCUCAGGGAGAUGCACAAGUGCACG
...(((....)))((.....))..(((((((((((.((((......))))...)))).)).....((((..((((.....))))..))))(((((((((...)))))))))...))))). (-41.33 = -41.45 +   0.12)

alignment

secondary structure

dotplot

Window 4

Location	15,955,653 – 15,955,773
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	96.39
Mean single sequence MFE	-42.38
Consensus MFE	-41.74
Energy contribution	-41.42
Covariance contribution	-0.31
Combinations/Pair	1.12
Mean z-score	-1.63
Structure conservation index	0.98
SVM decision value	0.52
SVM RNA-class probability	0.765865
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15955653 120 - 22224390
AUGGGGCUCGAUGCCCGCCAAUUUGGGCACCCAGUUCAUCAAUCCGGUGACGGGCAAAAAGCGAGUGCAGUGCAAUGUCUGUCUGAAGACCUUUUGCGACAAGGGUGCUCUAAAGAUUCA
...((((.....)))).....(((((((((((.((...((...(((....)))((.....))))..)).((((((.((((......))))...)))).))..)))))).)))))...... ( -43.70)
>DroSec_CAF1 23990 120 - 1
AUGGGGCUCGAUGCCCGCCAAUUUGGGCACCCAGUUCAUCAAUCCGGUGACGGGCAAAAAGCGAGUGCAGUGCAAUGUCUGUCUGAAGACCUUUUGCGACAAGGGUGCUCUGAAGAUUCA
...((((.....))))........((((((((.((...((...(((....)))((.....))))..)).((((((.((((......))))...)))).))..)))))))).......... ( -43.50)
>DroEre_CAF1 22667 120 - 1
AUGGGGCUCGAUGCCCGCAAAUUUGGGCACCCAGUUCAUCAAUCCGGUGACGGGCAAAAAGCGAGUGCAGUGCAAUGUCUGUCUGAAGACCUUCUGCGACAAGGGUGCUCUAAAGAUUCA
.((((((.....)))).))..(((((((((((......((...(((....)))((.....))))((((((......((((......))))...)))).))..)))))).)))))...... ( -43.00)
>DroYak_CAF1 6081 120 - 1
AUGGGGCUCGAUGCCCGCAAAUCUGGGCACCCAGUUCAUCAAUCCGGUGACGGGCAAGAAGCGAGUACAGUGCAAUGUCUGUCUGAAGACCUUUUGUGACAAGGGCGCUCUGAAGAUUCA
.((((((.....)))).))(((((((((.(((.((...((...(((....)))((.....))))..)).((((((.((((......))))...)))).))..))).))))...))))).. ( -39.30)
>consensus
AUGGGGCUCGAUGCCCGCAAAUUUGGGCACCCAGUUCAUCAAUCCGGUGACGGGCAAAAAGCGAGUGCAGUGCAAUGUCUGUCUGAAGACCUUUUGCGACAAGGGUGCUCUAAAGAUUCA
...((((.....)))).....((.((((((((.((...((...(((....)))((.....))))..)).((((((.((((......))))...)))).))..)))))))).))....... (-41.74 = -41.42 +  -0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:47 2006