Locus 1171

Sequence ID 3R_DroMel_CAF1
Location 3,550,751 – 3,550,861
Length 110
Max. P 0.747097
window1919

overview

Window 9

Location 3,550,751 – 3,550,861
Length 110
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 86.65
Mean single sequence MFE -26.85
Consensus MFE -21.99
Energy contribution -22.30
Covariance contribution 0.31
Combinations/Pair 1.23
Mean z-score -2.12
Structure conservation index 0.82
SVM decision value 0.47
SVM RNA-class probability 0.747097
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3550751 110 - 27905053
AGAAUGCUUUGUGUGCUUUGUUUGGUCUUUAAUAAAAACAAAGGGCACAUA------AAA---AAAGAAGUUUCCGCUUGGACAAUUU-UUUUGUAAUAGGCGAAUCAUUCGAGCAAAAU
....((((((((((.((((((((............)))))))).)))))..------...---...(((.....((((((.((((...-..))))..)))))).....)))))))).... ( -29.80)
>DroSec_CAF1 9624 110 - 1
GGAAUGCUUUGUGUACUUUGUUUGGUCUUUAAUAAAAACAAAGGACACAUA------AAA---AAAGAAGUUUCCGCUUGGGCAAAUU-UUUUGUAAUAGGCGAAUCAUUCGAGCAAAAU
....((((((((((.((((((((............)))))))).)))))..------...---...(((.....((((((.((((...-..))))..)))))).....)))))))).... ( -26.90)
>DroSim_CAF1 9888 111 - 1
GGAAUGCUUUGUGUACUUUGUUUGGUCUUUAAUAAAAACAAAGGACACAUA------AAA---AAGGAAGUUUCCGCUUGGGCAAUUUUUUUUGUAAUAGGCGAAUCAUUCGAGCAAAAU
....((((((((((.((((((((............)))))))).)))))..------...---...(((.....((((((.((((......))))..)))))).....)))))))).... ( -27.70)
>DroEre_CAF1 10069 110 - 1
CGAAUGCUUUGUGUACUUUGUGUGGUCCUUAAUAAAAACAAAGGACACGUA------AAA---AAAGAAGUUUCCGCUUGGGCAAUUU-UUUUGUAAUAGGCGAAUCAUUCGAGCAAAAU
((((((.(((((.((.((((((((.(((((..........)))))))))))------)).---(((((((((.((.....)).)))))-))))....)).))))).))))))........ ( -27.30)
>DroYak_CAF1 10454 112 - 1
AAAAUGCUUUGUGCACUUUGUGGGGUCUUUAAUAAAAACAAAGGACACAUAG-----AAA---AAAGAAGUUUCCGCUUGGGUAAUUUUUUUUGUAAUAAGCGAAUCGUUCGAGCAAAAU
......((.((((..((((((................))))))..)))).))-----...---............(((((((..((((.(((......))).))))..)))))))..... ( -22.49)
>DroAna_CAF1 5937 119 - 1
UUCAUGCUUUGUCUACUUUGUUUGCGCUUUAAUAAAAACAAAGGACAAAAAGGAAGAAAAAAAGAUGAAAUUUUCGGUUGGACAGUUU-UUUUGUGAUAGGCGAAUUAUUCGACCGAAAU
(((((.((((.(((.((((.(((((.((((.........))))).)))))))).)))...)))))))))..(((((((((((.(((((-.((((...)))).))))).))))))))))). ( -26.90)
>consensus
AGAAUGCUUUGUGUACUUUGUUUGGUCUUUAAUAAAAACAAAGGACACAUA______AAA___AAAGAAGUUUCCGCUUGGGCAAUUU_UUUUGUAAUAGGCGAAUCAUUCGAGCAAAAU
....((((((((((.((((((((............)))))))).))))).................(((.....((((((.((((......))))..)))))).....)))))))).... (-21.99 = -22.30 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:45 2006