Locus 159

Sequence ID 3R_DroMel_CAF1
Location 803,214 – 803,334
Length 120
Max. P 0.938065
window263 window264

overview

Window 3

Location 803,214 – 803,334
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 77.27
Mean single sequence MFE -38.63
Consensus MFE -24.79
Energy contribution -24.90
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.04
Structure conservation index 0.64
SVM decision value 1.29
SVM RNA-class probability 0.938065
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 803214 120 + 27905053
AUGCUAAUCAGCUUUGAUGCCCCGAAGCGCCGGAGCUCCAAGACCUGGAUGUCAGGCCUUCUGGAUUUUGGCCACGAGGGUUGCUUGGCCAUUUCUUAGUAAACUGGGGCAUGGCAAAUU
.((((((((......)))(((((((((.(((.((..((((.....))))..)).))))))).(((...((((((.(.......).))))))..))).........))))).))))).... ( -43.60)
>DroEre_CAF1 24705 112 + 1
AUGCUAAUCAGCUUCGAUGCCCU--------AGAGCUCCAAGCCUUGAAUGUCAGUCCUUCUGGAUUUUGGCCACGAGGGUUGCUCGGCCAUUUCGUGGUAAACUGGGGCAUGGCAAAUU
.((((((((......)))(((((--------((.....(((.(((((...((((((((....))))..))))..))))).)))....(((((...)))))...))))))).))))).... ( -39.20)
>DroYak_CAF1 30347 93 + 1
AUGCUAAUCAGCUUCGAUGCCCU--------GG---------------AAGUCAGUCCUUCUGGAUUUUGGCCAAGAGGGUUGCUGGGCCA----GUGGUAAACUGGGGCAUGAAAAAUU
.......(((((((((.((((((--------((---------------.((.((..(((..(((.......)))..)))..))))...)))----).))))...)))))).)))...... ( -33.10)
>consensus
AUGCUAAUCAGCUUCGAUGCCCU________GGAGCUCCAAG_C_UG_AUGUCAGUCCUUCUGGAUUUUGGCCACGAGGGUUGCUCGGCCAUUUCGUGGUAAACUGGGGCAUGGCAAAUU
..(((....)))....(((((((...........................(.(((.((((((((.......))).)))))))))...((((.....)))).....)))))))........ (-24.79 = -24.90 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 803,214 – 803,334
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 77.27
Mean single sequence MFE -32.17
Consensus MFE -20.16
Energy contribution -20.50
Covariance contribution 0.34
Combinations/Pair 1.09
Mean z-score -1.65
Structure conservation index 0.63
SVM decision value 0.23
SVM RNA-class probability 0.644755
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 803214 120 - 27905053
AAUUUGCCAUGCCCCAGUUUACUAAGAAAUGGCCAAGCAACCCUCGUGGCCAAAAUCCAGAAGGCCUGACAUCCAGGUCUUGGAGCUCCGGCGCUUCGGGGCAUCAAAGCUGAUUAGCAU
..((((..(((((((..............((((((...........))))))........((((((((.....))))))))(((((......))))))))))))))))(((....))).. ( -42.20)
>DroEre_CAF1 24705 112 - 1
AAUUUGCCAUGCCCCAGUUUACCACGAAAUGGCCGAGCAACCCUCGUGGCCAAAAUCCAGAAGGACUGACAUUCAAGGCUUGGAGCUCU--------AGGGCAUCGAAGCUGAUUAGCAU
........((((..((((((.....((..((((((((.....)))..)))))...)).....))))))........(((((.(((((..--------..))).)).))))).....)))) ( -29.10)
>DroYak_CAF1 30347 93 - 1
AAUUUUUCAUGCCCCAGUUUACCAC----UGGCCCAGCAACCCUCUUGGCCAAAAUCCAGAAGGACUGACUU---------------CC--------AGGGCAUCGAAGCUGAUUAGCAU
.....(((((((((...........----(((((.((.......)).))))).......((((......)))---------------).--------.)))))).)))(((....))).. ( -25.20)
>consensus
AAUUUGCCAUGCCCCAGUUUACCACGAAAUGGCCAAGCAACCCUCGUGGCCAAAAUCCAGAAGGACUGACAU_CA_G_CUUGGAGCUCC________AGGGCAUCGAAGCUGAUUAGCAU
..((((..((((((...............((((((...........)))))).....(((.....)))..............................))))))))))(((....))).. (-20.16 = -20.50 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:19 2006