Locus 2776

Sequence ID	X_DroMel_CAF1
Location	7,467,916 – 7,468,011
Length	95
Max. P	0.849293

overview

Window 1

Location	7,467,916 – 7,468,011
Length	95
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	89.71
Mean single sequence MFE	-26.50
Consensus MFE	-21.02
Energy contribution	-21.42
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.80
Structure conservation index	0.79
SVM decision value	0.78
SVM RNA-class probability	0.849293
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7467916 95 + 22224390
-----------------------UGGAGAAAUCAAAUUAAAGGCGGGCGAAACGCAUCAUUGUCAGAUGCACUCAC--GCUCCCUUAUGGCAUUCAAUUUUAAUUUGAAUUUCCGUUGAG
-----------------------.(((((..((((((((((((.(((((....(((((.......))))).....)--)))))))).((.....))....)))))))).)))))...... ( -26.60)
>DroSec_CAF1 1227 95 + 1
-----------------------UGGAGAAAUCAAAUUAAAGGCGGGCGAAACGCAUCAUUGUCAGAUGCACUCAC--GCUCCCUUAUGGCAUUCAAUUUUAAUUUGAAUUUCCGUUGAG
-----------------------.(((((..((((((((((((.(((((....(((((.......))))).....)--)))))))).((.....))....)))))))).)))))...... ( -26.60)
>DroSim_CAF1 2928 95 + 1
-----------------------UGGAGAAAUCAAAUUAAAGGCGGGCGAAACGCAUCAUUGUCAGAUGCACUCAC--GCUCCCUUAUGGCAUUCAAUUUUAAUUUGAAUUUCCGUUGAG
-----------------------.(((((..((((((((((((.(((((....(((((.......))))).....)--)))))))).((.....))....)))))))).)))))...... ( -26.60)
>DroEre_CAF1 1422 95 + 1
-----------------------UGGAGAAAUCAAAUUAAAGGCGGGCGAAACGCAUCAUUGUCAGUUGCACUCAC--GCUCCCUUAUGGCAUUCAAUUUUAAUUUGAAUUUCCGUUGAG
-----------------------.(((((..((((((((((((((.((((...(((....)))...)))).....)--))).((....))........)))))))))).)))))...... ( -23.00)
>DroYak_CAF1 3369 120 + 1
GGUACUGGUACUGGUACUGAAACUGGAGAAAUCAAAUUAAAGGCGGGCGAAACGCAUCAUUGUCAGAUGCACUCACUCACUCCCUUAUGGCAUUCAAUUUUAAUUUGAAUUUCCGUUGAG
((((((......))))))..(((.(((((..(((((((((((..(((.((...(((((.......)))))..)).)))....((....)).......))))))))))).))))))))... ( -29.70)
>consensus
_______________________UGGAGAAAUCAAAUUAAAGGCGGGCGAAACGCAUCAUUGUCAGAUGCACUCAC__GCUCCCUUAUGGCAUUCAAUUUUAAUUUGAAUUUCCGUUGAG
........................(((((..((((((((((((.((((((...(((((.......)))))..))....)))))))).((.....))....)))))))).)))))...... (-21.02 = -21.42 +   0.40)

alignment

secondary structure

dotplot

Window 2

Location	7,467,916 – 7,468,011
Length	95
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	89.71
Mean single sequence MFE	-24.68
Consensus MFE	-21.26
Energy contribution	-21.30
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-1.53
Structure conservation index	0.86
SVM decision value	0.71
SVM RNA-class probability	0.829987
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7467916 95 - 22224390
CUCAACGGAAAUUCAAAUUAAAAUUGAAUGCCAUAAGGGAGC--GUGAGUGCAUCUGACAAUGAUGCGUUUCGCCCGCCUUUAAUUUGAUUUCUCCA-----------------------
......(((((.((((((((((..((.....))....((.((--(.(((((((((.......))))))))))))))...)))))))))).)).))).----------------------- ( -25.10)
>DroSec_CAF1 1227 95 - 1
CUCAACGGAAAUUCAAAUUAAAAUUGAAUGCCAUAAGGGAGC--GUGAGUGCAUCUGACAAUGAUGCGUUUCGCCCGCCUUUAAUUUGAUUUCUCCA-----------------------
......(((((.((((((((((..((.....))....((.((--(.(((((((((.......))))))))))))))...)))))))))).)).))).----------------------- ( -25.10)
>DroSim_CAF1 2928 95 - 1
CUCAACGGAAAUUCAAAUUAAAAUUGAAUGCCAUAAGGGAGC--GUGAGUGCAUCUGACAAUGAUGCGUUUCGCCCGCCUUUAAUUUGAUUUCUCCA-----------------------
......(((((.((((((((((..((.....))....((.((--(.(((((((((.......))))))))))))))...)))))))))).)).))).----------------------- ( -25.10)
>DroEre_CAF1 1422 95 - 1
CUCAACGGAAAUUCAAAUUAAAAUUGAAUGCCAUAAGGGAGC--GUGAGUGCAACUGACAAUGAUGCGUUUCGCCCGCCUUUAAUUUGAUUUCUCCA-----------------------
......(((((.((((((((((..((.....))....((.((--(.(((((((.(.......).))))))))))))...)))))))))).)).))).----------------------- ( -20.50)
>DroYak_CAF1 3369 120 - 1
CUCAACGGAAAUUCAAAUUAAAAUUGAAUGCCAUAAGGGAGUGAGUGAGUGCAUCUGACAAUGAUGCGUUUCGCCCGCCUUUAAUUUGAUUUCUCCAGUUUCAGUACCAGUACCAGUACC
......(((((.((((((((((......(.((....)).)(((.((((..(((((.......)))))...)))).))).)))))))))).)).))).......((((........)))). ( -27.60)
>consensus
CUCAACGGAAAUUCAAAUUAAAAUUGAAUGCCAUAAGGGAGC__GUGAGUGCAUCUGACAAUGAUGCGUUUCGCCCGCCUUUAAUUUGAUUUCUCCA_______________________
......(((((.((((((((((......(.((....)).)((..((((..(((((.......)))))...))))..)).)))))))))).)).)))........................ (-21.26 = -21.30 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:54 2006