Locus 5380

Sequence ID 2L_DroMel_CAF1
Location 15,307,853 – 15,307,951
Length 98
Max. P 0.710782
window8539

overview

Window 9

Location 15,307,853 – 15,307,951
Length 98
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 70.57
Mean single sequence MFE -19.43
Consensus MFE -6.36
Energy contribution -6.94
Covariance contribution 0.58
Combinations/Pair 1.24
Mean z-score -2.02
Structure conservation index 0.33
SVM decision value 0.37
SVM RNA-class probability 0.710782
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15307853 98 + 22407834
AAACCAGCCGAAAGAUG-------CACAAAAGGCAUUUAGUGGCACUGUGGAAAA----AAUUCUAGAAAUAUAGAAAAUCUUAUGCC---AAUAA-------UAGAAUGUAG-AUAAAU
...(((((((..(((((-------(.......))))))..))))....)))....----..(((((......))))).(((((((...---.....-------....))).))-)).... ( -16.90)
>DroSec_CAF1 54777 105 + 1
AAACCAGCCGAAAGAUGGAAGAUGCAUAAAAGGCAUUUAGGGGCACUGUGGAAAA----AAUUCUAGAAUUAUAGAAACUCUUAAGAC---GAUAA-------AAGAAUGUAG-AUAAAU
...(((..(....).)))..(((((.......)))))((((((..(....)....----..(((((......))))).))))))....---.....-------..........-...... ( -13.70)
>DroSim_CAF1 55509 102 + 1
AAACCAGCCGAAAGAUGGAAGAUGCA---AAGGCAUUUAGGGGCACUGUGGAAAA----AAUUCUAGAAUUAUAGAAACCCUUAAGAC---GAUAA-------AAGAAUGUAG-AUAAAU
...(((..(....).)))..(((((.---...)))))((((((..(....)....----..(((((......))))).))))))....---.....-------..........-...... ( -17.00)
>DroEre_CAF1 58753 97 + 1
AAACCAGCCGAAAGAUG-------CAUAAAAGGCAUUUAGUGGCACUGUGGGAAA----AGUUCUACAAUUAUAAAAACUACCAAGCU---GAUAC-------AAGGAUUUAU-UUAAA-
...((.((((..(((((-------(.......))))))..))))..(((((((..----..)))))))....................---.....-------..))......-.....- ( -20.00)
>DroYak_CAF1 57314 91 + 1
AAACCAGCCAAAAGAUG-------CAUAAAAGGCAUUUUUUGGCACUGUGGAAAA----AAUUAUGAAAUUAUAGAAGCUCCCAG----------A-------AGGGAUUUAGCUUAAA-
...((((((((((((((-------(.......))))))))))))....)))....----................((((((((..----------.-------.))))....))))...- ( -26.20)
>DroAna_CAF1 60324 111 + 1
AAACCAGCCGAAAGAGG-------GCCAAAAUGCAUUUAGCUGCACAGUGGGAAAUUAAUAUUCCAGGUUCCUGGA-UUUCUUAUAUUUUGAAUAAGGAAGUCAAGAAUAAAG-UUUAAA
...((((.(....).((-------(((....((((......))))...(((((........)))))))))))))).-((((((((.......)))))))).............-...... ( -22.80)
>consensus
AAACCAGCCGAAAGAUG_______CAUAAAAGGCAUUUAGUGGCACUGUGGAAAA____AAUUCUAGAAUUAUAGAAACUCUUAAGAC___GAUAA_______AAGAAUGUAG_AUAAAU
...(((((((..(((((................)))))..))))....)))..........(((((......)))))........................................... ( -6.36 =  -6.94 +   0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:41 2006