Locus 421

Sequence ID 3R_DroMel_CAF1
Location 1,547,991 – 1,548,092
Length 101
Max. P 0.828693
window690 window691

overview

Window 0

Location 1,547,991 – 1,548,092
Length 101
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 78.73
Mean single sequence MFE -31.98
Consensus MFE -18.75
Energy contribution -18.95
Covariance contribution 0.20
Combinations/Pair 1.15
Mean z-score -1.97
Structure conservation index 0.59
SVM decision value 0.71
SVM RNA-class probability 0.828693
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1547991 101 + 27905053
UUGGGAGUUUCCUGCCU----------CAGUGGAGAAGUCGCCUGUGCCAAAAUUAUGCAAAUAUUUGUUAAAUGCGUUUUAGGCAUCAGGUCGCUCCACAUGGU---AGAAAU
......(((((.((((.----------..((((((.....(((((((((.(((..(((((..((.....))..)))))))).)))).)))))..))))))..)))---)))))) ( -34.10)
>DroVir_CAF1 59878 92 + 1
CUGGCUGGCACCUCCCU----------U-----AAAAGUCGCCUGUGCCAAAAUUAUGCAAACAUUUGUUAAAUGCGUUUUGGGCAUCAGGUCCUUUC----GGC---AAAAAU
...(((((.........----------.-----..(((..(((((((((...(..((((((((....)))...)))))..).)))).))))).)))))----)))---...... ( -22.90)
>DroPse_CAF1 49317 113 + 1
-UGCCGGCUGCCUGCCUUGCAAGGCCCUGGUGGAAAAGUCGCCUGUGCCAAAAUUAUGCAAAUAUUGGUUAAAUGCGUUUUGGGCAUCAGGUCCCUUCUCGUGCUCGUGGAAAU
-.(((((..((((((...)).)))).))))).((.(((..(((((((((...(..(((((..((.....))..)))))..).)))).)))))..))).)).............. ( -34.30)
>DroSim_CAF1 50216 100 + 1
-UGGGAGUUUCCUGCCU----------CAGUGGAAAAGUCGCCUGUGCCAAAAUUAUGCAAAUAUUUGUUAAAUGCGUUUUAGGCAUCAGGUCGCUCCACAUGGC---UCAAAU
-.(((.....)))(((.----------..(((((...((.(((((((((.(((..(((((..((.....))..)))))))).)))).))))).)))))))..)))---...... ( -32.10)
>DroAna_CAF1 47498 101 + 1
UUUCGUCUUUCCUACCU----------CAGCGGAAAAGUCGCCUGUGCCAAAAUUAUGCAAAUAUUUGUUAAAUGCGUUUUAGGCAUCAGGUCGCUCCGCAUGGU---GGAAAU
.......(((((.(((.----------..(((((...((.(((((((((.(((..(((((..((.....))..)))))))).)))).))))).)))))))..)))---))))). ( -34.90)
>DroPer_CAF1 50941 110 + 1
-UGGCGGCUGCCUGCCUUGCAAGGCCCUGGUGGAAAAGUCGCCUGUGCCAAAAUUAUGCAAAUAUUGGUUAAAUGCGUUUUAGGCAUCAGGUCCCUUCUCGUGCU---GGAAAU
-...((((.(((.((((....))))...))).((.(((..(((((((((.(((..(((((..((.....))..)))))))).)))).)))))..))).))..)))---)..... ( -33.60)
>consensus
_UGGCAGUUUCCUGCCU__________CAGUGGAAAAGUCGCCUGUGCCAAAAUUAUGCAAAUAUUUGUUAAAUGCGUUUUAGGCAUCAGGUCCCUCCACAUGGU___GGAAAU
.............................((((...((..(((((((((.(((..((((((((....)))...)))))))).)))).)))))..)))))).............. (-18.75 = -18.95 +   0.20) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 1,547,991 – 1,548,092
Length 101
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 78.73
Mean single sequence MFE -29.38
Consensus MFE -15.28
Energy contribution -14.92
Covariance contribution -0.36
Combinations/Pair 1.14
Mean z-score -1.95
Structure conservation index 0.52
SVM decision value 0.19
SVM RNA-class probability 0.625287
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1547991 101 - 27905053
AUUUCU---ACCAUGUGGAGCGACCUGAUGCCUAAAACGCAUUUAACAAAUAUUUGCAUAAUUUUGGCACAGGCGACUUCUCCACUG----------AGGCAGGAAACUCCCAA
......---..((.((((((((.((((.((((.((((.(((..((.....))..)))....))))))))))))))....))))))))----------.((.((....)).)).. ( -30.90)
>DroVir_CAF1 59878 92 - 1
AUUUUU---GCC----GAAAGGACCUGAUGCCCAAAACGCAUUUAACAAAUGUUUGCAUAAUUUUGGCACAGGCGACUUUU-----A----------AGGGAGGUGCCAGCCAG
......---.((----(((((..((((.((((.((((.(((..((.....))..)))....))))))))))))...)))))-----.----------.))..(((....))).. ( -20.70)
>DroPse_CAF1 49317 113 - 1
AUUUCCACGAGCACGAGAAGGGACCUGAUGCCCAAAACGCAUUUAACCAAUAUUUGCAUAAUUUUGGCACAGGCGACUUUUCCACCAGGGCCUUGCAAGGCAGGCAGCCGGCA-
.......((.((..((((((...((((.((((.((((.(((..((.....))..)))....))))))))))))...)))))).......((((.((...)))))).))))...- ( -31.00)
>DroSim_CAF1 50216 100 - 1
AUUUGA---GCCAUGUGGAGCGACCUGAUGCCUAAAACGCAUUUAACAAAUAUUUGCAUAAUUUUGGCACAGGCGACUUUUCCACUG----------AGGCAGGAAACUCCCA-
......---(((..((((((((.((((.((((.((((.(((..((.....))..)))....))))))))))))))....))))))..----------.)))((....))....- ( -29.90)
>DroAna_CAF1 47498 101 - 1
AUUUCC---ACCAUGCGGAGCGACCUGAUGCCUAAAACGCAUUUAACAAAUAUUUGCAUAAUUUUGGCACAGGCGACUUUUCCGCUG----------AGGUAGGAAAGACGAAA
.(((((---(((..((((((((.((((.((((.((((.(((..((.....))..)))....))))))))))))))....))))))..----------.))).)))))....... ( -32.90)
>DroPer_CAF1 50941 110 - 1
AUUUCC---AGCACGAGAAGGGACCUGAUGCCUAAAACGCAUUUAACCAAUAUUUGCAUAAUUUUGGCACAGGCGACUUUUCCACCAGGGCCUUGCAAGGCAGGCAGCCGCCA-
....((---.....((((((...((((.((((.((((.(((..((.....))..)))....))))))))))))...)))))).....))((((....)))).(((....))).- ( -30.90)
>consensus
AUUUCC___ACCAUGAGAAGCGACCUGAUGCCUAAAACGCAUUUAACAAAUAUUUGCAUAAUUUUGGCACAGGCGACUUUUCCACUA__________AGGCAGGAAACACCCA_
................((((...((((.((((.((((.(((..((.....))..)))....))))))))))))...)))).................................. (-15.28 = -14.92 +  -0.36) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:49 2006