Locus 4925

Sequence ID	2R_DroMel_CAF1
Location	16,079,546 – 16,079,638
Length	92
Max. P	0.795218

overview

Window 8

Location	16,079,546 – 16,079,638
Length	92
Sequences	6
Columns	94
Reading direction	forward
Mean pairwise identity	86.98
Mean single sequence MFE	-30.28
Consensus MFE	-25.78
Energy contribution	-25.50
Covariance contribution	-0.28
Combinations/Pair	1.04
Mean z-score	-1.56
Structure conservation index	0.85
SVM decision value	0.07
SVM RNA-class probability	0.568258
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16079546 92 + 20766785
UGGAGGUAUUAACGCAUGUGAAGCCGCCGGCGUCGAUUUGGCGGCUAAUUACCUCCUGGUAAUGGCAACUCUCGGAAAGGCCCAAGAAAGGA--
.(((((((....((....)).(((((((((.......)))))))))...))))))).......(....)(((.((......)).))).....-- ( -28.70)
>DroPse_CAF1 4079 86 + 1
UGGAGGUAUUAACGCAUGUGAAGCCGCCGGCAUCGAUUUGGCGGCUAAUUACCUCCUGGUAAUGGCAACUCUCCGGUGUACCG------GUA--
.(((((((....((....)).(((((((((.......)))))))))...))))))).......(....)...((((....)))------)..-- ( -31.50)
>DroSim_CAF1 1173 92 + 1
UGGAGGUAUUAACGCAUGUGAAGCCGCCGGCGUCGAUUUGGCGGCUAAUUACCUCCUGGUAAUGGCAACUCUCGGAAAGGCCCAAGAAAGGA--
.(((((((....((....)).(((((((((.......)))))))))...))))))).......(....)(((.((......)).))).....-- ( -28.70)
>DroEre_CAF1 1213 93 + 1
UGG-GGUAUUAACGCAUGUGAAGCCGCCGGCGUCGAUUUGGCGGCUAAUUACCUCCUGGUAAUGGCAACUCUUGGAAAAGUCCAAGAAUGGAGA
...-.........((......(((((((((.......))))))))).((((((....)))))).))...(((((((....)))))))....... ( -31.10)
>DroAna_CAF1 1144 88 + 1
UGGAGGUAUUAACGCAUAUGAAGCCGCCGGCGUCGAUUUGGCGGCUAAUUACCUUCUGGUAAUGGCAACUCUCGGAAAAGCCCG------GAGA
.............((......(((((((((.......))))))))).((((((....)))))).))..(((.(((......)))------))). ( -30.20)
>DroPer_CAF1 4035 86 + 1
UGGAGGUAUUAACGCAUGUGAAGCCGCCGGCAUCGAUUUGGCGGCUAAUUACCUCCUGGUAAUGGCAACUCUCCGGUGUACCG------GUA--
.(((((((....((....)).(((((((((.......)))))))))...))))))).......(....)...((((....)))------)..-- ( -31.50)
>consensus
UGGAGGUAUUAACGCAUGUGAAGCCGCCGGCGUCGAUUUGGCGGCUAAUUACCUCCUGGUAAUGGCAACUCUCGGAAAAGCCCA_____GGA__
.((((((....))((......(((((((((.......))))))))).((((((....)))))).))..)))).((......))........... (-25.78 = -25.50 +  -0.28)

alignment

secondary structure

dotplot

Window 9

Location	16,079,546 – 16,079,638
Length	92
Sequences	6
Columns	94
Reading direction	reverse
Mean pairwise identity	86.98
Mean single sequence MFE	-29.07
Consensus MFE	-23.71
Energy contribution	-23.10
Covariance contribution	-0.61
Combinations/Pair	1.21
Mean z-score	-2.32
Structure conservation index	0.82
SVM decision value	0.60
SVM RNA-class probability	0.795218
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16079546 92 - 20766785
--UCCUUUCUUGGGCCUUUCCGAGAGUUGCCAUUACCAGGAGGUAAUUAGCCGCCAAAUCGACGCCGGCGGCUUCACAUGCGUUAAUACCUCCA
--....((((((((....))))))))............(((((((...(((((((...........)))))))..((....))...))))))). ( -30.60)
>DroPse_CAF1 4079 86 - 1
--UAC------CGGUACACCGGAGAGUUGCCAUUACCAGGAGGUAAUUAGCCGCCAAAUCGAUGCCGGCGGCUUCACAUGCGUUAAUACCUCCA
--..(------(((....))))................(((((((...(((((((...........)))))))..((....))...))))))). ( -30.00)
>DroSim_CAF1 1173 92 - 1
--UCCUUUCUUGGGCCUUUCCGAGAGUUGCCAUUACCAGGAGGUAAUUAGCCGCCAAAUCGACGCCGGCGGCUUCACAUGCGUUAAUACCUCCA
--....((((((((....))))))))............(((((((...(((((((...........)))))))..((....))...))))))). ( -30.60)
>DroEre_CAF1 1213 93 - 1
UCUCCAUUCUUGGACUUUUCCAAGAGUUGCCAUUACCAGGAGGUAAUUAGCCGCCAAAUCGACGCCGGCGGCUUCACAUGCGUUAAUACC-CCA
.....(((((((((....))))))))).((.((((((....)))))).(((((((...........)))))))......)).........-... ( -28.20)
>DroAna_CAF1 1144 88 - 1
UCUC------CGGGCUUUUCCGAGAGUUGCCAUUACCAGAAGGUAAUUAGCCGCCAAAUCGACGCCGGCGGCUUCAUAUGCGUUAAUACCUCCA
.(((------((((....)))).)))..((.((((((....)))))).(((((((...........)))))))......))............. ( -25.00)
>DroPer_CAF1 4035 86 - 1
--UAC------CGGUACACCGGAGAGUUGCCAUUACCAGGAGGUAAUUAGCCGCCAAAUCGAUGCCGGCGGCUUCACAUGCGUUAAUACCUCCA
--..(------(((....))))................(((((((...(((((((...........)))))))..((....))...))))))). ( -30.00)
>consensus
__UCC_____UGGGCAUUUCCGAGAGUUGCCAUUACCAGGAGGUAAUUAGCCGCCAAAUCGACGCCGGCGGCUUCACAUGCGUUAAUACCUCCA
...........(((....))).................(((((((...(((((((...........)))))))..((....))...))))))). (-23.71 = -23.10 +  -0.61)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:21 2006