Locus 6483

Sequence ID	X_DroMel_CAF1
Location	16,261,237 – 16,261,357
Length	120
Max. P	0.693987

overview

Window 8

Location	16,261,237 – 16,261,357
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	92.92
Mean single sequence MFE	-36.17
Consensus MFE	-28.95
Energy contribution	-30.70
Covariance contribution	1.75
Combinations/Pair	1.08
Mean z-score	-1.86
Structure conservation index	0.80
SVM decision value	0.34
SVM RNA-class probability	0.693987
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16261237 120 + 22224390
CGCCACAAUGUGGAUAAACCCAAACCCAAAUGGGUUUCCGAUGUUGCCGCAUUAAAGUGCAGUCCGCGGAACAUGGGAAUCCUUGUAUCCUGUAUCCAAUUGCACUGGGAAACAUGGCGG
(((((.(((((((...(((..((((((....)))))).....))).)))))))..((((((((..((((((((.((....)).))).))).)).....)))))))).(....).))))). ( -40.70)
>DroSec_CAF1 9503 120 + 1
CGCCACAAUGUGGAUAAACCCAAACCCAAAUGGUUUUCCAAUGUUGCCGCAUUAAAGUGUAGUCCGCGGAACAUGGGUAUCCUUGUAUCCUGUAUCCAAUUGCACUGGGAAACAUGGCGG
(((((.....(((......)))..........((((((((((((....)))))..((((((((....((((((.((((((....))))))))).))).))))))))))))))).))))). ( -37.80)
>DroEre_CAF1 9625 120 + 1
CGCCACAUUGUGGAUAAACCCAAACCCAAAUGGGCAUCCAAUGUUGCCGCAUUAAAGUGCAGUCCGCGGAACAUGGGAAUCCUUGUAUCCUUUAUCCAAUUUCACUGGUAAACAUGGCGA
(((((....((((((.................((((........))))((((....)))).))))))((((((.((....)).))).)))((((.(((.......)))))))..))))). ( -34.10)
>DroYak_CAF1 9517 120 + 1
CGCCACAAUGUGGAUAAACUCAAACCCAAAUAGGUUUCCAAUGUUGUCUCAUUAAAGUGCAGUCCGCGGAACAUGGGAAUCCUUGCAUCCUGUAUCCAAUUGCAUUGGGAAACAUGGCGG
(((((((((((((((..(((.(((((......)))))..((((......))))..)))...))))..(((..((((((.........)))))).)))....))))))(....).))))). ( -32.10)
>consensus
CGCCACAAUGUGGAUAAACCCAAACCCAAAUGGGUUUCCAAUGUUGCCGCAUUAAAGUGCAGUCCGCGGAACAUGGGAAUCCUUGUAUCCUGUAUCCAAUUGCACUGGGAAACAUGGCGG
(((((.(((((((...(((..((((((....)))))).....))).)))))))..((((((((....(((..((((((.........)))))).))).)))))))).(....).))))). (-28.95 = -30.70 +   1.75)

alignment

secondary structure

dotplot

Window 9

Location	16,261,237 – 16,261,357
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	92.92
Mean single sequence MFE	-36.71
Consensus MFE	-31.75
Energy contribution	-32.00
Covariance contribution	0.25
Combinations/Pair	1.12
Mean z-score	-1.38
Structure conservation index	0.86
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16261237 120 - 22224390
CCGCCAUGUUUCCCAGUGCAAUUGGAUACAGGAUACAAGGAUUCCCAUGUUCCGCGGACUGCACUUUAAUGCGGCAACAUCGGAAACCCAUUUGGGUUUGGGUUUAUCCACAUUGUGGCG
.((((((((.(((..(((........))).))).))..((((.(((((((((((((.............))))).)))))...((((((....)))))))))...)))).....)))))) ( -39.62)
>DroSec_CAF1 9503 120 - 1
CCGCCAUGUUUCCCAGUGCAAUUGGAUACAGGAUACAAGGAUACCCAUGUUCCGCGGACUACACUUUAAUGCGGCAACAUUGGAAAACCAUUUGGGUUUGGGUUUAUCCACAUUGUGGCG
.((((((((.(((..(((........))).))).))..((((((((((((((((((.............))))).)))))....(((((.....)))))))))..)))).....)))))) ( -36.22)
>DroEre_CAF1 9625 120 - 1
UCGCCAUGUUUACCAGUGAAAUUGGAUAAAGGAUACAAGGAUUCCCAUGUUCCGCGGACUGCACUUUAAUGCGGCAACAUUGGAUGCCCAUUUGGGUUUGGGUUUAUCCACAAUGUGGCG
.(((((((((..(((((...))))).....(((((.......(((.((((((((((.............))))).))))).))).(((((........))))).)))))..))))))))) ( -39.32)
>DroYak_CAF1 9517 120 - 1
CCGCCAUGUUUCCCAAUGCAAUUGGAUACAGGAUGCAAGGAUUCCCAUGUUCCGCGGACUGCACUUUAAUGAGACAACAUUGGAAACCUAUUUGGGUUUGAGUUUAUCCACAUUGUGGCG
.((((((....(((((((((.(((....)))..))))(((.((((.(((((..((.....)).(((....)))..))))).)))).)))..))))).....((......))...)))))) ( -31.70)
>consensus
CCGCCAUGUUUCCCAGUGCAAUUGGAUACAGGAUACAAGGAUUCCCAUGUUCCGCGGACUGCACUUUAAUGCGGCAACAUUGGAAACCCAUUUGGGUUUGGGUUUAUCCACAUUGUGGCG
.((((((.....(((((...))))).....(((((........((.((((((((((.............))))).))))).))((((((....)))))).....))))).....)))))) (-31.75 = -32.00 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:58 2006