Locus 6464

Sequence ID	2L_DroMel_CAF1
Location	18,165,787 – 18,165,881
Length	94
Max. P	0.678647

overview

Window 1

Location	18,165,787 – 18,165,881
Length	94
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	84.58
Mean single sequence MFE	-19.91
Consensus MFE	-14.68
Energy contribution	-14.72
Covariance contribution	0.04
Combinations/Pair	1.16
Mean z-score	-1.75
Structure conservation index	0.74
SVM decision value	0.30
SVM RNA-class probability	0.678647
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18165787 94 + 22407834
UAAUUACAAGUUCAGCUGAGUUUUCAAAUGAGUUUUCCCUUUCAGCUGAAGCUUUAAUUUGCGUACUUGAAAUUAAUGCCGAUUGAAAGUUACU
(((((.((((((((((((((....................))))))))).((........))..))))).)))))................... ( -19.15)
>DroSec_CAF1 8334 94 + 1
UAAUUACAAGUUCAGCUGAGUUUUCAAAUGAGUUUUCCCUUUCAGCUGAAGCUUUAAUUUGCGUACUUGAAAUUAAUGCCGAUUGAAAGUUACU
(((((.((((((((((((((....................))))))))).((........))..))))).)))))................... ( -19.15)
>DroSim_CAF1 8352 94 + 1
UAAUUACAAGUUCAGCUGAGUUUUCAAAUGAGUUUUCCCUUUCAGCUGAACCUUCAAUUUGCGUAUCUGAAAUUAAUGCCGAUUGAAAGUUACU
(((((....(((((((((((....................))))))))))).(((((((.((((...........)))).)))))))))))).. ( -23.35)
>DroEre_CAF1 8529 88 + 1
UAAUUACAAGUUCAGCUGAGUUUUUAAAUGAGUUUUCCCUUUCAGCUGGAGCUUUAAGUUUCGUUCUUGGUUGUACUG------GAAAUAUAAC
......((((..((((((((.....(((....))).....)))))))(((((.....))))))..))))((((((.(.------...))))))) ( -17.40)
>DroYak_CAF1 8647 88 + 1
UAAUUACAAGUCCAGCUGAGUUUUUAAAUGAGUUUUCCCUUUCAGCUGGAGCUUUAAUUUGCAUACUUGGUUGUACUC------AAAAUAUAAU
......((((((((((((((.....(((....))).....))))))))))((........))...))))((((((...------....)))))) ( -20.50)
>consensus
UAAUUACAAGUUCAGCUGAGUUUUCAAAUGAGUUUUCCCUUUCAGCUGAAGCUUUAAUUUGCGUACUUGAAAUUAAUGCCGAUUGAAAGUUACU
......((((((((((((((.....(((....))).....))))))))))((........))...))))......................... (-14.68 = -14.72 +   0.04)

alignment

secondary structure

dotplot

Window 2

Location	18,165,787 – 18,165,881
Length	94
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	84.58
Mean single sequence MFE	-17.53
Consensus MFE	-13.48
Energy contribution	-13.48
Covariance contribution	0.00
Combinations/Pair	1.10
Mean z-score	-1.66
Structure conservation index	0.77
SVM decision value	0.24
SVM RNA-class probability	0.648122
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18165787 94 - 22407834
AGUAACUUUCAAUCGGCAUUAAUUUCAAGUACGCAAAUUAAAGCUUCAGCUGAAAGGGAAAACUCAUUUGAAAACUCAGCUGAACUUGUAAUUA
...................(((((.(((((..((........)).((((((((..(((....)))...(....).))))))))))))).))))) ( -18.20)
>DroSec_CAF1 8334 94 - 1
AGUAACUUUCAAUCGGCAUUAAUUUCAAGUACGCAAAUUAAAGCUUCAGCUGAAAGGGAAAACUCAUUUGAAAACUCAGCUGAACUUGUAAUUA
...................(((((.(((((..((........)).((((((((..(((....)))...(....).))))))))))))).))))) ( -18.20)
>DroSim_CAF1 8352 94 - 1
AGUAACUUUCAAUCGGCAUUAAUUUCAGAUACGCAAAUUGAAGGUUCAGCUGAAAGGGAAAACUCAUUUGAAAACUCAGCUGAACUUGUAAUUA
........(((((..((...............))..)))))((((((((((((..(((....)))...(....).))))))))))))....... ( -21.56)
>DroEre_CAF1 8529 88 - 1
GUUAUAUUUC------CAGUACAACCAAGAACGAAACUUAAAGCUCCAGCUGAAAGGGAAAACUCAUUUAAAAACUCAGCUGAACUUGUAAUUA
..........------...(((((..(((.......))).......(((((((....(((......)))......)))))))...))))).... ( -10.10)
>DroYak_CAF1 8647 88 - 1
AUUAUAUUUU------GAGUACAACCAAGUAUGCAAAUUAAAGCUCCAGCUGAAAGGGAAAACUCAUUUAAAAACUCAGCUGGACUUGUAAUUA
....((.(((------(.((((......)))).)))).))(((.(((((((((....(((......)))......))))))))))))....... ( -19.60)
>consensus
AGUAACUUUCAAUCGGCAUUAAUUUCAAGUACGCAAAUUAAAGCUUCAGCUGAAAGGGAAAACUCAUUUGAAAACUCAGCUGAACUUGUAAUUA
...................................((((((((.(((((((((..(((....)))...(....).)))))))))))).))))). (-13.48 = -13.48 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:51 2006