Locus 312

Sequence ID 3R_DroMel_CAF1
Location 1,210,162 – 1,210,282
Length 120
Max. P 0.866058
window525

overview

Window 5

Location 1,210,162 – 1,210,282
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.94
Mean single sequence MFE -47.70
Consensus MFE -31.86
Energy contribution -30.37
Covariance contribution -1.49
Combinations/Pair 1.44
Mean z-score -1.97
Structure conservation index 0.67
SVM decision value 0.85
SVM RNA-class probability 0.866058
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1210162 120 - 27905053
UUCUAUCGCGCACCUCCAAGGAGGGCAAGCGCUUUGUAAAGGUGAUCAUCGAUCUGGCGGCGGUGGCGGCCCAGGUGACGGGCCUGGUGAUCUGGCCGCUGCUGGAGAACCGCCGUGAGC
....(((((((.((((....))))))...((((..((...(((....))).))..)))))))))((((((((.(....)))))).(((..((..((....))..))..))))))...... ( -53.60)
>DroVir_CAF1 1147 120 - 1
UGCUUUCGCGAACCUCCAAGGAGGGUAAACGCUUCAUUAAAGUCAUCAUCGAUCUGGCUGCAAUUGCAGCGCAGGUCACCGGCCUGGUUAUCUGGCCCCUACUGGAGAACCGGCGCGAAC
....(((((((.((((....))))......((((.....))))..))...(((((((((((....))))).))))))....(((.((((.((..(......)..)).)))))))))))). ( -45.80)
>DroGri_CAF1 1250 120 - 1
UGCUCUCGCGCACCUCGAAGGAGGGCAAACGAUUCAUUAAGAUCAUCAUUGAUCUGGCUGCGGUAGCAGCACAGGUAACUGGUCUCGUCAUCUGGCCGCUGUUGGAGAAUCGUCGCGAAC
.....((((((.((((....))))))..(((((((....((((((......((((((((((....))))).)))))...)))))).....((..((....))..))))))))).)))).. ( -49.40)
>DroWil_CAF1 1190 120 - 1
UUCUCUCGCGCACUUCGAAGGAGGGCAAACGCUUUGUGAAAGUGAUUAUCGAUCUGGCAGCAAUCGCUGCUCAGGUAACUGGUCUCAUAAUUUGGCCAUUAUUGGAGAAUCGUCGAGAGU
..((((((((..((((((..(.((.((((....((((((....(((((...((((((((((....))))).)))))...))))))))))))))).)).)..))))))...)).)))))). ( -42.20)
>DroMoj_CAF1 1150 120 - 1
UGUUGUCACGCACUUCUAAGGAGGGCAAACGCUUCAUCAAAGUCAUUAUCGAUCUGGCUGCCGUUGCUGCCCAGGUCACGGGCCUCGUUAUCUGGCCACUGCUGGAGAAUCGACGCGAGC
.((.(((..((.((((....)))))).....(((((.((...........((((((((.((....)).).)))))))...((((.........))))..)).)))))....))))).... ( -35.00)
>DroAna_CAF1 1165 120 - 1
UGCUUUCCCGCACCUCCAAGGAGGGCAAGCGAUUCGUGAAGGUCAUCAUCGACUUGGCAGCAGUGGCGGCCCAGGUAACGGGCCUGGUCAUCUGGCCACUGCUGGAGAAUCGUCGGGAGC
....(((((((.((((....))))))..(((((((....(((((......)))))..(((((((((((((((.......))))).((....)).))))))))))..))))))).))))). ( -60.20)
>consensus
UGCUCUCGCGCACCUCCAAGGAGGGCAAACGCUUCAUGAAAGUCAUCAUCGAUCUGGCUGCAGUGGCAGCCCAGGUAACGGGCCUCGUCAUCUGGCCACUGCUGGAGAAUCGUCGCGAGC
.....((((((.((((....))))))..(((.(((.....(((........(((((((.((....)).)).)))))....((((.........))))...)))...))).))).)))).. (-31.86 = -30.37 +  -1.49) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:07 2006