Locus 5667

Sequence ID 2L_DroMel_CAF1
Location 16,096,375 – 16,096,471
Length 96
Max. P 0.678205
window8983

overview

Window 3

Location 16,096,375 – 16,096,471
Length 96
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 80.87
Mean single sequence MFE -26.98
Consensus MFE -17.78
Energy contribution -17.83
Covariance contribution 0.06
Combinations/Pair 1.10
Mean z-score -1.65
Structure conservation index 0.66
SVM decision value 0.30
SVM RNA-class probability 0.678205
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16096375 96 + 22407834
AGAAC--------------------AGAACUUGUGGCAUUUUGUGCUUAUUAUUGGGCAUUCAAAUUGCCUCAAGCAUGAAUUAUGUGCGACCAGCGAAUCAAAUUUGGCGCAAAU
....(--------------------(...((((.((((.((((((((((....))))))..)))).)))).))))..)).......((((.((((..........))))))))... ( -27.70)
>DroPse_CAF1 33872 113 + 1
AGAGGAGGUUGGAGUGCGGCUGGAGAAAACUUGUGGCAUU-UGUGCUUAU--UUGGACAUUCAAAUUGCCUCAAGCAUGAAUUAUGUGCGGAGAGCGAAUCAAAUUUGACUCGAAU
.((((((((..((((((.((.((......)).)).)))))-)..))))((--((((....))))))..))))..((((.......))))...((((((((...))))).))).... ( -28.00)
>DroEre_CAF1 26911 96 + 1
AGAAC--------------------AGAACUUGUGGCAUUUUGUGCUUAUUAUUGGGCAUUCAAAAUGCCUCAAGCAUGAAUUAUGUGCGACCAGCGAAUCAAAUUUGACGCAAAU
....(--------------------(...((((.(((((((((((((((....))))))..))))))))).))))..)).......((((.....(((((...))))).))))... ( -27.20)
>DroYak_CAF1 26335 96 + 1
AGAAC--------------------CGAACUUGUGGCAUUUUGUGCUUAUUAUUGGGCAUUCAAAUUGCCUCAAGCAUGAAUUAUGUGCGACCAGCGAAUCAAAUUUGACGCAAAU
.....--------------------.....(((.((((.((((((((((....))))))..)))).)))).)))((((.......)))).....(((..(((....)))))).... ( -23.70)
>DroAna_CAF1 24945 95 + 1
AGGGC--------------------GAAACUUGUGGCAUU-UGUGCUUAUUAUUGAGCAUUCAAGUUGCCUCAAGCAUGAAUUAUGUGCGGCCAGCGAAUCAAAAUUGGCUCAAGU
..(((--------------------.....(((.((((((-((((((((....))))))..)))).)))).)))((((.......)))).)))(((.(((....))).)))..... ( -27.90)
>DroPer_CAF1 35949 113 + 1
AGAGGAGGUUGGAGUGGGGCUGGAGAAAACUUGUGGCAUU-UGUGCUUAU--UUGGACAUUCAAAUUGCCUCAAGCAUGAAUUAUGUGCGGAGAGCGAAUCAAAUUUGACUCGAAU
.((((..(((.(((((...(..((..........((((..-..))))..)--)..).))))).)))..))))..((((.......))))...((((((((...))))).))).... ( -27.40)
>consensus
AGAAC____________________AAAACUUGUGGCAUU_UGUGCUUAUUAUUGGGCAUUCAAAUUGCCUCAAGCAUGAAUUAUGUGCGACCAGCGAAUCAAAUUUGACGCAAAU
.((..........................((((.((((....(((((((....)))))))......)))).))))...........(((.....)))..))............... (-17.78 = -17.83 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:45 2006