Locus 5479

Sequence ID 2R_DroMel_CAF1
Location 17,634,146 – 17,634,266
Length 120
Max. P 0.807274
window8740

overview

Window 0

Location 17,634,146 – 17,634,266
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.33
Mean single sequence MFE -42.85
Consensus MFE -17.77
Energy contribution -19.05
Covariance contribution 1.28
Combinations/Pair 1.35
Mean z-score -2.20
Structure conservation index 0.41
SVM decision value 0.64
SVM RNA-class probability 0.807274
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17634146 120 + 20766785
AGAGCUGCCGCAGCUUCAGCUGCGCCAUCUCGAGUUCGUUCGAUUUUUGGGAAAGCUGUUGCUGCAGUUCCUCUUGAUGCUGGUUGCUCUGCUUUAGCUGGGCCUCUAGUUCGUUGAGAU
.(((((((.(((((...((((...(((..(((((....)))))....)))...))))))))).))))))).(((..(((((((..((((.((....)).))))..)))))..))..))). ( -47.70)
>DroPse_CAF1 30310 120 + 1
AGAGCUGGCGCAGCUUCAGCUCAGCCAUCUCCAGUUCGCUCGAUUUCUCGGCCAGCUGCCGCUGAAGCUCAUCCUGACGGAGGUUUAGCUGUUUUAGCUGUGCCUCCAUUUCGAGCAGGU
.(((.((((..(((....)))..)))).)))......((((((......((((((((((.((((((.(((.........))).)))))).))...))))).)))......)))))).... ( -47.80)
>DroGri_CAF1 37685 120 + 1
AUAGCUGGCGUAUCUUUAAUUGUGCCAUUUCCAGUUCAUUGCUUUUGUCCGCCAGCUGCUGCUGCAGUUCAUCCUGCCGUGCAUUUAGCUGACCCAGCUGCGCCUGCAGCUCACCAAGAU
..(((((((((((........))))........(..((.......))..))))))))(((((.((((......)))).(((((....((((...)))))))))..))))).......... ( -35.60)
>DroEre_CAF1 23244 120 + 1
AGAGCUGUCGCACCUUUAGCUGCGCCAUCUCAAGUUCGUUGGAUUUUUGGGAAAGCUGUUGUUGCAGUUCCUCGUGUCGCUGGUUGCUUUGCUUCAGCUGGGCCUCGAGUUCGUUGAGAU
.(((((((.(((....(((((......(((((((.((....))..))))))).))))).))).)))))))((((....(((.(..(((..((....))..)))..).)))....)))).. ( -35.50)
>DroAna_CAF1 21475 120 + 1
ACAGUUGGCGCAACUUCAGCUGCGCCAUCUCCAGUUCAUUUGUUUUGCUGGCCAGCUGUUGCUGCAGUUCCUCCUGCCGGAGAUUGACCUGCUUAAGCUGGGCCUCCAGCUCUAUAAGAU
..((.(((((((.(....).))))))).))........(((((...(((((((((((......((((.((((((....))))...)).))))...))))))....)))))...))))).. ( -42.70)
>DroPer_CAF1 30037 120 + 1
AGAGCUGGCGCAGCUUCAGCUCAGCCAUCUCCAGUUCGCUCGAUUUCUCGGCCAGCUGCCGCUGAAGCUCAUCCUGACGGAGGUUUAGCUGUUUUAGCUGUGCCUCCAUUUCGAGCAGGU
.(((.((((..(((....)))..)))).)))......((((((......((((((((((.((((((.(((.........))).)))))).))...))))).)))......)))))).... ( -47.80)
>consensus
AGAGCUGGCGCAGCUUCAGCUGCGCCAUCUCCAGUUCGUUCGAUUUCUCGGCCAGCUGCUGCUGCAGUUCAUCCUGACGGAGGUUGAGCUGCUUUAGCUGGGCCUCCAGUUCGAUAAGAU
.(((.(((((((........))))))).)))..................(((((((((..((..(((((............)))))....))..)))))).)))................ (-17.77 = -19.05 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:52 2006