Locus 275

Sequence ID 2R_DroMel_CAF1
Location 1,674,417 – 1,674,583
Length 166
Max. P 0.789850
window583 window584

overview

Window 3

Location 1,674,417 – 1,674,507
Length 90
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.52
Mean single sequence MFE -30.12
Consensus MFE -15.73
Energy contribution -16.06
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.93
Structure conservation index 0.52
SVM decision value 0.20
SVM RNA-class probability 0.630831
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1674417 90 + 20766785
UGUCAGGGGCAUGAAGUUGCAAUGAAAAUGAAAUUGCAAACGGCCCA---ACACA---AGGCGGGAUAUUUAUACGAGACUGC------------------------AUUGGUGUGAGCG
......((((......(((((((.........)))))))...)))).---((((.---..((((...............))))------------------------....))))..... ( -23.66)
>DroPse_CAF1 91572 120 + 1
UGUCAGGGGCAUGAAGUUGCAAUGAAAAUGAAAUUGCAAGCGGCCCAUAGACAUAGACAGCCGGGAUAUUUAUACAUGUCUGUCGCUGGCUGUGUGCGCGUAUCCGUGUAUCUGUGUGUG
......((((.((...(((((((.........))))))).)))))).((.((((((((((((((((((..((....))..)))).))))))))(((((((....))))))))))))).)) ( -43.40)
>DroSec_CAF1 58429 90 + 1
UGUCAGGGGCAUGAAGUUGCAAUGAAAAUGAAAUUGCAAACGGCCCA---ACACA---AGGCGGGAUAUUUAUACGAGACUGC------------------------AUUGGUGUGAGCG
......((((......(((((((.........)))))))...)))).---((((.---..((((...............))))------------------------....))))..... ( -23.66)
>DroSim_CAF1 55420 90 + 1
UGUCAGGGGCAUGAAGUUGCAAUGAAAAUGAAAUUGCAAACGGCCCA---ACACA---AGGCGGGAUAUUUAUACGAGACUGC------------------------AUUGGUGUGAGCG
......((((......(((((((.........)))))))...)))).---((((.---..((((...............))))------------------------....))))..... ( -23.66)
>DroEre_CAF1 65833 90 + 1
UGUCAGGGGCAUGAAGUUGCAAUGAAAAUGAAAUUGCAAACGGCCCA---ACACA---AGGCGGGAUAUUUAUACGAGACUGC------------------------AUAAGUGUGAGCG
......((((......(((((((.........)))))))...)))).---.((((---..((((...............))))------------------------.....)))).... ( -22.96)
>DroPer_CAF1 85460 120 + 1
UGUCAGGGGCAUGAAGUUGCAAUGAAAAUGAAAUUGCAAGCGGCCCAUAGACAUAGACAGCCGGGAUAUUUAUACAUGUCUGUCGCUGGCUGUGUGCGCGUAUCCGUGUAUCUGUGUGUG
......((((.((...(((((((.........))))))).)))))).((.((((((((((((((((((..((....))..)))).))))))))(((((((....))))))))))))).)) ( -43.40)
>consensus
UGUCAGGGGCAUGAAGUUGCAAUGAAAAUGAAAUUGCAAACGGCCCA___ACACA___AGGCGGGAUAUUUAUACGAGACUGC________________________AUAGGUGUGAGCG
(((...((((.((...(((((((.........))))))).))))))....))).......((((...............))))..................................... (-15.73 = -16.06 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 1,674,491 – 1,674,583
Length 92
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 74.94
Mean single sequence MFE -30.42
Consensus MFE -18.57
Energy contribution -17.68
Covariance contribution -0.88
Combinations/Pair 1.30
Mean z-score -1.52
Structure conservation index 0.61
SVM decision value 0.58
SVM RNA-class probability 0.789850
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1674491 92 + 20766785
UGC------------------------AUUGGUGUGAGCGCCGCGCAUUAUAUUUAGUUGCUAGUGCCUGGUUCCACUAUGUUCGGUGUGGCGGCUUUUAGAU----AUGUAUCUGCGAG
(((------------------------((......(((((((((((...((((...(..(((((...)))))..)...))))...))))))).))))......----)))))........ ( -26.60)
>DroPse_CAF1 91652 116 + 1
UGUCGCUGGCUGUGUGCGCGUAUCCGUGUAUCUGUGUGUGGUGCACAUUAUAUUUAGUUACUUGUGUCUGGUUCUACUGCAUUCUAUGCGGCAGUUUCUAGAU----AUGUAUCUGCGAG
..((((((((((.(((((((....))))))).(((((.....))))).......))))))...((((((((..((.((((((...)))))).))...))))))----))......)))). ( -34.60)
>DroSec_CAF1 58503 92 + 1
UGC------------------------AUUGGUGUGAGCGCCGCGCAUUAUAUUUAGUUGCUAGUGCCUGGUUCUACUAUGUUCGGUGUGGCGGCUUUUAGAU----AUGUAUCUGCGAG
(((------------------------((......(((((((((((...((((.(((..(((((...))))).)))..))))...))))))).))))......----)))))........ ( -27.20)
>DroSim_CAF1 55494 92 + 1
UGC------------------------AUUGGUGUGAGCGCCGCGCAUUAUAUUUAGUUGCUAGUGCCUGGUUCUACUAUGUUCGGUGUGGCGGCUUUUAGAU----AUGUAUCUGCGAG
(((------------------------((......(((((((((((...((((.(((..(((((...))))).)))..))))...))))))).))))......----)))))........ ( -27.20)
>DroEre_CAF1 65907 96 + 1
UGC------------------------AUAAGUGUGAGCGCCGCGCAUUAUAUUUAGUUGCUAGUGCCUGGUUCUACUAUGUUCUGUGCGGCGGUUUUUAGAUACAUAUGUAUCCGCGAG
(((------------------------(((.((((((.(((((((((..((((.(((..(((((...))))).)))..))))..))))))))).)).....)))).))))))........ ( -32.30)
>DroPer_CAF1 85540 116 + 1
UGUCGCUGGCUGUGUGCGCGUAUCCGUGUAUCUGUGUGUGGUGCACAUUAUAUUUAGUUACUUGUGUCUGGUUCUACUGCAUUCUAUGCGGCAGUUUCUAGAU----AUGUAUCUGCGAG
..((((((((((.(((((((....))))))).(((((.....))))).......))))))...((((((((..((.((((((...)))))).))...))))))----))......)))). ( -34.60)
>consensus
UGC________________________AUAGGUGUGAGCGCCGCGCAUUAUAUUUAGUUGCUAGUGCCUGGUUCUACUAUGUUCGGUGCGGCGGCUUUUAGAU____AUGUAUCUGCGAG
......................................((((((((.....((.((((.(((((...)))))...)))).))...)))))))).(((.(((((........))))).))) (-18.57 = -17.68 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:20 2006