Locus 3823

Sequence ID 3L_DroMel_CAF1
Location 11,024,819 – 11,024,914
Length 95
Max. P 0.851072
window5955

overview

Window 5

Location 11,024,819 – 11,024,914
Length 95
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 74.46
Mean single sequence MFE -23.30
Consensus MFE -16.33
Energy contribution -16.16
Covariance contribution -0.17
Combinations/Pair 1.22
Mean z-score -1.49
Structure conservation index 0.70
SVM decision value 0.79
SVM RNA-class probability 0.851072
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11024819 95 + 23771897
AAACCCAACAGCAUAAAGGGGGAGUUCUAUUGCGUUAACGCUUUUCGG-------CUGAUAUCGUGGCUAA--AAGCUUAGUGCUUAUUUUUUGGGCACUUAAU
......(((.(((...((((....))))..))))))...((((((.((-------((........))))))--))))..((((((((.....)))))))).... ( -21.80)
>DroSec_CAF1 161150 97 + 1
AAACCCA---GCAUA-AGGGGGAGUUAUAUUUCGUUAACGCUUUUCAGCUGAUGGCUGAUAAUACGGCUAA--AAGCUUAGUGCUUAUUU-UUGGCCACUUAAU
...(((.---.....-.)))((.((((........)))).))..(((((.....)))))......((((((--((((.....)))....)-))))))....... ( -23.50)
>DroSim_CAF1 156271 100 + 1
AAACCCAGCAGCAUA-AGGGGGAGUUCUAUUGCGUUAACGCUUUUCAGCUGAUGGCUGAUAAUACGGCUAA--AAGCUUAGUGCUUAUUU-UUGGCCACUUAAU
...(((.........-.))).((((......(((....)))...(((((.....)))))......((((((--((((.....)))....)-))))))))))... ( -25.20)
>DroEre_CAF1 158912 79 + 1
AAACCCC---ACAUA-UGGGGGAGUUCCAUU-----------UGUCAG-------CUGAUACUACGGCUAG--GAGCUUAGUGCUUAUUU-UUGGCCAUUUAAU
...((((---(....-)))))(((((((...-----------....((-------(((......))))).)--)))))).(.(((.....-..))))....... ( -21.60)
>DroYak_CAF1 162674 79 + 1
AAACCCC---ACUCA-AGGGGGUGCUCCAUU-------------UCGG-------CUGAUACUACGGCCAACAAAGCUUAGUGCUUAUUU-UUGGACAUUUAAU
...((((---.....-.))))(((.((((..-------------..((-------(((......)))))....((((.....))))....-.)))))))..... ( -24.40)
>consensus
AAACCCA___GCAUA_AGGGGGAGUUCUAUU_CGUUAACGCUUUUCAG_______CUGAUAAUACGGCUAA__AAGCUUAGUGCUUAUUU_UUGGCCACUUAAU
...(((............))).......................(((((.....)))))......((((((..((((.....)))).....))))))....... (-16.33 = -16.16 +  -0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:32 2006