Locus 5396

Sequence ID X_DroMel_CAF1
Location 14,041,483 – 14,041,600
Length 117
Max. P 0.516022
window8756

overview

Window 6

Location 14,041,483 – 14,041,600
Length 117
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 80.95
Mean single sequence MFE -23.65
Consensus MFE -12.45
Energy contribution -15.20
Covariance contribution 2.75
Combinations/Pair 1.09
Mean z-score -2.21
Structure conservation index 0.53
SVM decision value -0.03
SVM RNA-class probability 0.516022
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14041483 117 + 22224390
AUAAUUAAAACUAAGUGCAUAUUUAAAUAUGCAAAUUACUGAAGCCAAACAGAGUAGACCAACCAUAUUUACUUUCAUUGAGCUUCAUUCGUUUUGCAACAGAACAGGGGCAAA-AAA--
...............(((((((....)))))))......(((((((((..((((((((.........))))))))..))).))))))....((((((..(......)..)))))-)..-- ( -26.00)
>DroSim_CAF1 10018 116 + 1
AUAAUGAAAACUAAGUGUAUAUUUUAAUAUGCAAAUUACUGAAGCCAAACAGUGUAGACCGACCA--UUUACUUUCAU-GAGCUUCAUUGGUUUUGAUCCAGAACAGGGGCAAA-UCGAC
......((((((((.(((((((....)))))))......((((((((......(((((.......--))))).....)-).))))))))))))))(..((......))..)...-..... ( -21.00)
>DroEre_CAF1 10561 110 + 1
UUAAUUUAAAGUAAGUGCAUAAUUUAAUAUUCAAAUUACUAAAGCCAACCAGAGUUGGCC----A--UUUACUUUAAU-GGGCUUCUUUAGUUGUGACCCAGUACACCGGCAAA-AAA--
.....((((((((((((..((((((.......)))))).....((((((....)))))))----)--))))))))))(-((((............).)))).............-...-- ( -23.30)
>DroYak_CAF1 10477 111 + 1
AUAAUUAAAACUAAGUGCAUAUUUUAAUAUGCAAAUUACUGAAGCCAAUUAGAGUUGGCC----A--UUUACUUUCAU-GAGCUUCAUUAGUUUUGACCCAGAACACACGCAAACAAA--
....((((((((((.(((((((....)))))))......((((((..((.(((((.....----.--...))))).))-..)))))))))))))))).....................-- ( -24.30)
>consensus
AUAAUUAAAACUAAGUGCAUAUUUUAAUAUGCAAAUUACUGAAGCCAAACAGAGUAGACC____A__UUUACUUUCAU_GAGCUUCAUUAGUUUUGACCCAGAACACGGGCAAA_AAA__
....((((((((((.(((((((....)))))))......(((((((....((((((((.........))))))))....).))))))))))))))))....................... (-12.45 = -15.20 +   2.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:57 2006