Locus 488

Sequence ID X_DroMel_CAF1
Location 1,416,095 – 1,416,210
Length 115
Max. P 0.916445
window751

overview

Window 1

Location 1,416,095 – 1,416,210
Length 115
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 73.02
Mean single sequence MFE -29.28
Consensus MFE -7.80
Energy contribution -8.68
Covariance contribution 0.88
Combinations/Pair 1.14
Mean z-score -1.98
Structure conservation index 0.27
SVM decision value 1.11
SVM RNA-class probability 0.916445
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1416095 115 - 22224390
CCCUCACAUUCCAUCGCGAGCAUUUGGCUGACAGCAUAACUAAUCGCGACUGUAACAG-CUGCUUAGAGCUGACACCUUGUAUGUGGCAUACAGUUCUUAAUGGAAAAUUAA---AACU
........(((((((((((.......((.....))........)))))((((((.(((-((......))))).(((.......)))...)))))).....))))))......---.... ( -28.56)
>DroSec_CAF1 22562 111 - 1
CCACCA-AUUCCAUCGCGAGCAUUUGGCUGACAGCAUGACUAUUCGCGAAUGUAACAG-CUACUUAAAGCUGGCACCUUGUAUGAGGCAUAAAGACA----U--ACAAUUAAUGGAACU
......-.((((((((((((......((.....)).......)))))))..((..(((-((......)))))..)).(((((((...........))----)--))))....))))).. ( -27.32)
>DroSim_CAF1 13183 115 - 1
CCACCA-AUUCCAUCGCGAGCAUUUGGUUGACAGCAUGACUAUUCGCGAAUGUAACAG-CUACUUAAAGCUGGCACCUUGUAUGAGGCAUACAGACAUACAU--ACAAUUAAUGGAACU
......-.((((((((((((....(((((........))))))))))))(((((.(((-((......))))).....(((((((...)))))))...)))))--........))))).. ( -30.00)
>DroEre_CAF1 17888 105 - 1
CCACGC-AUUGCACCGCGAGCUUCUGGCUGAUAGCUUAACUAUUCGCCAAUGUAAGAU-GUGAUCAAAGCUCGCACCUUGUAUGUGGCAUACA-UUC-----------UCUAUGGAACU
(((...-........((((((((.((((.(((((.....))))).))))......(((-...))).))))))))....((((((...))))))-...-----------....))).... ( -28.20)
>DroYak_CAF1 14082 104 - 1
---CAC-AACUCAACGCGAGCUUCUGGCUGACAGCGUAACUAUUCGCCCAUGUUAACUCUUGCUCAAAGCUCGCAAGUUGUAUGUGGAAAAUAGUUC-----------UUUAUGGAACU
---(((-(...((((((((((((..(((((((((((........)))...)))))......)))..))))))))..))))..))))......(((((-----------(....)))))) ( -32.30)
>consensus
CCACCA_AUUCCAUCGCGAGCAUUUGGCUGACAGCAUAACUAUUCGCGAAUGUAACAG_CUGCUUAAAGCUGGCACCUUGUAUGUGGCAUACAGUUC____U__A_AAUUAAUGGAACU
.............(((((((......((.....)).......)))))))...................(((.((.....))....)))............................... ( -7.80 =  -8.68 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:47 2006