Locus 6902

Sequence ID	3L_DroMel_CAF1
Location	18,617,736 – 18,617,831
Length	95
Max. P	0.999972

overview

Window 9

Location	18,617,736 – 18,617,831
Length	95
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	93.05
Mean single sequence MFE	-31.72
Consensus MFE	-27.28
Energy contribution	-28.72
Covariance contribution	1.44
Combinations/Pair	1.10
Mean z-score	-3.61
Structure conservation index	0.86
SVM decision value	4.17
SVM RNA-class probability	0.999824
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18617736 95 + 23771897
CUGCAGUGCAUUUGCCAUAAGGGAUAUGUACACUCCCUCAAAGGGAUUUCGCAACUUUUGCUUGUGGUUUUUAAGAACAACAAGCAAACUGCAUU
.(((.((((((.(.((....)).).))))))..((((.....))))....)))...(((((((((.((((....)))).)))))))))....... ( -31.20)
>DroSec_CAF1 29371 95 + 1
UUGCAGUGCAUUUGCCGUAAGGGAUGUGUACACUCCCUCAAAGGGAUUUCGCAACUUUUGCUUGUGGUUUUUAAGAACAACAAGCAAACUGCAUU
((((.((((((.(.((....)).).))))))..((((.....))))....))))..(((((((((.((((....)))).)))))))))....... ( -34.50)
>DroSim_CAF1 30262 95 + 1
UUGCAGUGCAUUUGCCGUAAGGGAUGUGUACACUCCCUCAAAGGGAUUUCGCAACUUUUGCUUGUGGUUUUUAAGAACAACAAGCAAACUGCAUU
((((.((((((.(.((....)).).))))))..((((.....))))....))))..(((((((((.((((....)))).)))))))))....... ( -34.50)
>DroEre_CAF1 29952 94 + 1
CUGCAGUGUAUUGGCCGUA-GGGAUGUGCUCAGUCCCUCAAAGGGAUUUUGCAACUUCUGCUUGUGGUUUUUAAGAACAACAAGCAAACUGCAUU
.((((((............-.(((..(((..((((((.....))))))..)))...)))((((((.((((....)))).))))))..)))))).. ( -33.30)
>DroYak_CAF1 30377 95 + 1
CUGCAGUGUAUUUGCCGUAAGGGACGUGUACUCUCCCUCAAAGGGAUUUUGCAACUUUUGCUUGUGGUUUUUAAGAACAACAUACAAACUGCAUU
.(((((((((......(((((((...((((...((((.....))))...)))).))))))).(((.((((....)))).))))))..)))))).. ( -25.10)
>consensus
CUGCAGUGCAUUUGCCGUAAGGGAUGUGUACACUCCCUCAAAGGGAUUUCGCAACUUUUGCUUGUGGUUUUUAAGAACAACAAGCAAACUGCAUU
.((((((((((.(.((....)).).))))....((((.....))))...........((((((((.((((....)))).)))))))))))))).. (-27.28 = -28.72 +   1.44)

alignment

secondary structure

dotplot

Window 0

Location	18,617,736 – 18,617,831
Length	95
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	93.05
Mean single sequence MFE	-29.64
Consensus MFE	-26.96
Energy contribution	-27.20
Covariance contribution	0.24
Combinations/Pair	1.10
Mean z-score	-3.59
Structure conservation index	0.91
SVM decision value	5.08
SVM RNA-class probability	0.999972
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18617736 95 - 23771897
AAUGCAGUUUGCUUGUUGUUCUUAAAAACCACAAGCAAAAGUUGCGAAAUCCCUUUGAGGGAGUGUACAUAUCCCUUAUGGCAAAUGCACUGCAG
..((((((((((((((.(((......))).)))))))))...((((.....((..(((((((.........))))))).))....))))))))). ( -31.60)
>DroSec_CAF1 29371 95 - 1
AAUGCAGUUUGCUUGUUGUUCUUAAAAACCACAAGCAAAAGUUGCGAAAUCCCUUUGAGGGAGUGUACACAUCCCUUACGGCAAAUGCACUGCAA
..((((((((((((((.(((......))).)))))))))...((((....((...(((((((((....)).))))))).))....))))))))). ( -32.20)
>DroSim_CAF1 30262 95 - 1
AAUGCAGUUUGCUUGUUGUUCUUAAAAACCACAAGCAAAAGUUGCGAAAUCCCUUUGAGGGAGUGUACACAUCCCUUACGGCAAAUGCACUGCAA
..((((((((((((((.(((......))).)))))))))...((((....((...(((((((((....)).))))))).))....))))))))). ( -32.20)
>DroEre_CAF1 29952 94 - 1
AAUGCAGUUUGCUUGUUGUUCUUAAAAACCACAAGCAGAAGUUGCAAAAUCCCUUUGAGGGACUGAGCACAUCCC-UACGGCCAAUACACUGCAG
..((((((((((((((.(((......))).))))))))).((((((((.....))))(((((.((....))))))-).)))).......))))). ( -27.20)
>DroYak_CAF1 30377 95 - 1
AAUGCAGUUUGUAUGUUGUUCUUAAAAACCACAAGCAAAAGUUGCAAAAUCCCUUUGAGGGAGAGUACACGUCCCUUACGGCAAAUACACUGCAG
..((((((.(((.((((((...............(((.....)))...........((((((..(....).)))))))))))).))).)))))). ( -25.00)
>consensus
AAUGCAGUUUGCUUGUUGUUCUUAAAAACCACAAGCAAAAGUUGCGAAAUCCCUUUGAGGGAGUGUACACAUCCCUUACGGCAAAUGCACUGCAG
..((((((((((((((.(((......))).)))))))))...((((....((...(((((((.........))))))).))....))))))))). (-26.96 = -27.20 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:36 2006