Locus 1577

Sequence ID 3R_DroMel_CAF1
Location 4,510,138 – 4,510,242
Length 104
Max. P 0.891040
window2607

overview

Window 7

Location 4,510,138 – 4,510,242
Length 104
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 78.47
Mean single sequence MFE -23.20
Consensus MFE -11.98
Energy contribution -12.57
Covariance contribution 0.58
Combinations/Pair 1.07
Mean z-score -2.37
Structure conservation index 0.52
SVM decision value 0.96
SVM RNA-class probability 0.891040
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4510138 104 + 27905053
AAGGGACUCACCCCAUAUGCAUAUCGCAUGG-----------AUAAAAAAAACGUGCCCUCCUGUUAAGUGGCGCUAAAAAUCAAAUUAAGGGUGUUUACCUAA----CGACCCCUCGA
.(((....(((((..(((((.....))))).-----------...........(((((((.......)).)))))...............)))))....)))..----(((....))). ( -25.80)
>DroPse_CAF1 10286 107 + 1
AAAAAACACACCCUAUACAC---UCGUACGAG-------U--AUGUAAAAAAAGUGCCCUCCUAUUAAGUGGCGCUAAAAAUCAAAUUAAGGGUGUUUACCCAAACGACGACUCCUCGA
.......((((((((((.((---((....)))-------)--.)))).....((((((((.......)).))))))..............))))))............(((....))). ( -25.40)
>DroEre_CAF1 10204 101 + 1
-AAGAACUCACCCCAUAUGCAUAUCGCAUGG-----------AUAAAA--AAAGUGCCCUCCUGUUAAGUGGCGCUAAAAAUCAAAUUAAGGGUGUUUACCCAA----CGACUCCUCGA
-.......(((((..(((((.....))))).-----------......--..((((((((.......)).))))))..............))))).........----(((....))). ( -22.20)
>DroWil_CAF1 5875 91 + 1
AAAAAACACACCCCAUGU------------------------AUAUAAAAAAUAUGCCCUCAUGUUAAGUGGCGCUAAAAAUCAAAUUAAGGGUGUUUACAUAA----CGACUCCUCGA
.......((((((.....------------------------((((.....))))(((((.......)).))).................))))))........----(((....))). ( -13.50)
>DroAna_CAF1 8547 113 + 1
-AAAAACUCACCCCAUAUGCAUAUCACAUGAGAAGCGUGUGUAUAA-AAAAAAGUG-CCUCUUGUUAAGUGGCGCUAAAAAUCAAAUUAAGGGUGUUUACCUAAA---AGACCUCUCGA
-.......((((((((((((...((....))...))))))).....-.....((((-((.((.....)).))))))..............)))))..........---........... ( -26.90)
>DroPer_CAF1 10264 107 + 1
AAAAAACACACCCUAUACAC---UCGUACGAG-------U--AUGUAAAAAAAGUGCCCUCCUAUUAAGUGGCGCUAAAAAUCAAAUUAAGGGUGUUUACCCAAACGACGACUCCUCGA
.......((((((((((.((---((....)))-------)--.)))).....((((((((.......)).))))))..............))))))............(((....))). ( -25.40)
>consensus
AAAAAACACACCCCAUAUGC___UCGCAUGA___________AUAAAAAAAAAGUGCCCUCCUGUUAAGUGGCGCUAAAAAUCAAAUUAAGGGUGUUUACCCAA____CGACUCCUCGA
........(((((.....((.....)).........................((((((((.......)).))))))..............)))))........................ (-11.98 = -12.57 +   0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:02 2006