Locus 2993

Sequence ID	X_DroMel_CAF1
Location	7,966,183 – 7,966,330
Length	147
Max. P	0.968335

overview

Window 9

Location	7,966,183 – 7,966,296
Length	113
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	79.53
Mean single sequence MFE	-41.48
Consensus MFE	-32.24
Energy contribution	-32.33
Covariance contribution	0.09
Combinations/Pair	1.32
Mean z-score	-2.87
Structure conservation index	0.78
SVM decision value	1.62
SVM RNA-class probability	0.968335
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7966183 113 + 22224390
CGUUUCUGUGUCCUUUUGGCCGUCGAAGUAGCGUUUGUACGGCGUCUUAGCCUUCGGGCGCCCUUUCGGCGUUACUUUCGUCAUCUUGAUGUGUCAGCAAGAUGAAAUUAACU
.........(.((....)).)(((((((..(((((((...(((......)))..)))))))..)))))))((((.(((((((...((((....))))...))))))).)))). ( -35.30)
>DroSec_CAF1 3821 113 + 1
CGUUUCUGUGUCCUUUUGGCCGUCGAAGUAGCGUUUGUAGGGCGUCUUAGCCUUCGGGCGCCCUUUCGGCGCUAUUUUCGUCAUCUUGAUGGAUCCGCAAGGUGAAAUUAACU
.(((((.....((((.(((((((((((((((((((...(((((((((........)))))))))...))))))))).........)))))))..))).)))).)))))..... ( -41.40)
>DroSim_CAF1 1809 113 + 1
CGUUUCUGUGUCCUUUUGGCCGUCGAAGUAGCGUUUGUAGGGCGUCUUAGCCUUUGGGCGCCCUUUUGGCGCUAUUUUCGUCAUCUUGAUGGAUCCGCAAGGUGAAAUUAACU
.(((((.....((((.(((((((((((((((((((...(((((((((........)))))))))...))))))))).........)))))))..))).)))).)))))..... ( -42.80)
>DroEre_CAF1 1803 113 + 1
CGAUUCAGUCUGCUUUUGCUCCUGGAAGUAGCGUUUGUAGGGCGCCUUGGCCUUUGGGCGGCCUUUUGGCGUUACUUUGGUCAUGUUGAAGGGUCAGCAAGGUGAAAUGAACU
.......(.((((((((......)))))))))(((..(....((((((((((....)))(((((((..((((.((....)).))))..)))))))..)))))))..)..))). ( -43.30)
>DroYak_CAF1 1799 113 + 1
CGUUUCAGUGGGCUUUUGCUCCUCGAAGUAGCGUUUGUAGGGCGUCUUAGCCUUUGGGCGCCCUUUUGGCGCUACUUUGGUCAUCUUGAUGGAUCGGCAAGGUGAAAUGAACU
(((((((.(((((....))))..((((((((((((...(((((((((........)))))))))...))))))))))))(((((((....)))).)))..).))))))).... ( -50.40)
>DroAna_CAF1 1847 103 + 1
CGGCU---------UCGCAGAGUCAAAGUAGCGCUUAAAGGUUGUCUUGGGCUUUGGGCGCCCUUUCGGCGCUUUCUUGGUCAUUUUGAAGGCGCUGU-UGGUUAAAUAAUUC
.((((---------(....)))))......((((((((((.((.....)).))))))))))((...((((((((((...........)))))))))).-.))........... ( -35.70)
>consensus
CGUUUCUGUGUCCUUUUGGCCGUCGAAGUAGCGUUUGUAGGGCGUCUUAGCCUUUGGGCGCCCUUUCGGCGCUACUUUCGUCAUCUUGAUGGAUCAGCAAGGUGAAAUUAACU
........................(((((((((((...(((((((((........)))))))))...)))))))))))..((((((((.........))))))))........ (-32.24 = -32.33 +   0.09)

alignment

secondary structure

dotplot

Window 0

Location	7,966,220 – 7,966,330
Length	110
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	82.04
Mean single sequence MFE	-30.20
Consensus MFE	-19.84
Energy contribution	-20.23
Covariance contribution	0.39
Combinations/Pair	1.36
Mean z-score	-1.55
Structure conservation index	0.66
SVM decision value	-0.01
SVM RNA-class probability	0.529829
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7966220 110 + 22224390
UACGGCGUCUUAGCCUUCGGGCGCCCUUUCGGCGUUACUUUCGUCAUCUUGAUGUGUCAGCAAGAUGAAAUUAACUUAAAAGCUGGCUUCAAAUAAAGUUAA---UUUGAAAU
..((((......(((....)))(((.....)))((((.(((((((...((((....))))...))))))).))))......))))..(((((((.......)---)))))).. ( -31.70)
>DroSec_CAF1 3858 110 + 1
UAGGGCGUCUUAGCCUUCGGGCGCCCUUUCGGCGCUAUUUUCGUCAUCUUGAUGGAUCCGCAAGGUGAAAUUAACUUAAAAGCUGGCUUAAAACAAAAAUAA---UUUGAAUU
.(((((((((........))))))))).(((((..........((((((((.((....)))))))))).............))))).......((((.....---)))).... ( -30.20)
>DroSim_CAF1 1846 110 + 1
UAGGGCGUCUUAGCCUUUGGGCGCCCUUUUGGCGCUAUUUUCGUCAUCUUGAUGGAUCCGCAAGGUGAAAUUAACUUAAAAGCUGGCUUAAAACAAAAAUAA---UUUGAAUU
.(((((((((........))))))))).(..((..........((((((((.((....)))))))))).............))..).......((((.....---)))).... ( -29.40)
>DroEre_CAF1 1840 110 + 1
UAGGGCGCCUUGGCCUUUGGGCGGCCUUUUGGCGUUACUUUGGUCAUGUUGAAGGGUCAGCAAGGUGAAAUGAACUUGAAAGUCGGCUUAAAACAAAAAUAA---CUUGAAUU
((((.((((((((((....)))(((((((..((((.((....)).))))..)))))))..)))))))............(((....))).............---)))).... ( -34.20)
>DroYak_CAF1 1836 110 + 1
UAGGGCGUCUUAGCCUUUGGGCGCCCUUUUGGCGCUACUUUGGUCAUCUUGAUGGAUCGGCAAGGUGAAAUGAACUUAAAAGCUGGCUUAAAACAAAAAUAA---UUUGAAUU
.(((((((((........)))))))))(((((.((((((((..((((((((.........))))))))..........)))).))))))))).((((.....---)))).... ( -29.20)
>DroAna_CAF1 1875 111 + 1
AAGGUUGUCUUGGGCUUUGGGCGCCCUUUCGGCGCUUUCUUGGUCAUUUUGAAGGCGCUGU-UGGUUAAAUAAUUCUAAAACCUAGGUUUAAAAAAAAUUGGCUCUUUGAAU-
.(((((.....((((.......))))...((((((((((...........)))))))))).-.................)))))..(((((((............)))))))- ( -26.50)
>consensus
UAGGGCGUCUUAGCCUUUGGGCGCCCUUUCGGCGCUACUUUCGUCAUCUUGAUGGAUCAGCAAGGUGAAAUUAACUUAAAAGCUGGCUUAAAACAAAAAUAA___UUUGAAUU
.(((((((((........))))))))).(((((..........((((((((.........)))))))).............)))))........................... (-19.84 = -20.23 +   0.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:33 2006