Locus 3423

Sequence ID 2R_DroMel_CAF1
Location 11,575,080 – 11,575,179
Length 99
Max. P 0.546180
window5584

overview

Window 4

Location 11,575,080 – 11,575,179
Length 99
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 82.08
Mean single sequence MFE -20.07
Consensus MFE -15.70
Energy contribution -15.33
Covariance contribution -0.37
Combinations/Pair 1.06
Mean z-score -1.48
Structure conservation index 0.78
SVM decision value 0.02
SVM RNA-class probability 0.546180
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11575080 99 + 20766785
AAAAACGGGCCGAAA---AAAGCCAUCACAAAGGAAACACACUGUGAAUAUUCAUGAGAAAUUGCCGUUGAACGUUUGCCUG------------------UUGUUGGCCAAAAAAAAAAA
.......((((((..---..(((.........(....).....(..((..((((((.(......))).))))..))..)..)------------------)).))))))........... ( -18.20)
>DroSec_CAF1 11511 98 + 1
AAAAACGGGCCGAAA---AAAGCCAUCACAAAGGAAACACACUGUGAAUAUUCAUAAGAAAUUGUCGUUGAACGUUUGCCUG------------------UUGUUGGCCAAAAAAAAAA-
.......((((((..---..(((.........(....).....(..((..((((...((.....))..))))..))..)..)------------------)).))))))..........- ( -19.70)
>DroSim_CAF1 11824 97 + 1
AAAAACGGGCCGAAA---AAAGCCAUCACAAAGGAAACACACUGUGAAUAUUCAUGAGAAAUUGUCGUUGAACGUUUGCCAG------------------UUGUUGGCCAAAAAAA-AA-
.......((((....---....((........)).((((.((((..((..((((...((.....))..))))..))..).))------------------))))))))).......-..- ( -20.70)
>DroYak_CAF1 11870 111 + 1
AAAAACGUGCCGAAAAAAAGAGCCAUCACAAAGGA--CACACUGUGAAUAUUCAUGAGUAAUUGCCGUUGAAUGUUUGCCAGCAUAGUUCGCAAUCACAAUUGUUGGCGAAAA-------
.....................((((.......(((--(...(((..((((((((((.((....)))).))))))))..).))....))))(((((....))))))))).....------- ( -21.70)
>consensus
AAAAACGGGCCGAAA___AAAGCCAUCACAAAGGAAACACACUGUGAAUAUUCAUGAGAAAUUGCCGUUGAACGUUUGCCAG__________________UUGUUGGCCAAAAAAA_AA_
.......((((((...................(....).....(..(((.((((...(.......)..)))).)))..)........................))))))........... (-15.70 = -15.33 +  -0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:06 2006