Locus 2557

Sequence ID	X_DroMel_CAF1
Location	6,861,750 – 6,861,902
Length	152
Max. P	0.996072

overview

Window 5

Location	6,861,750 – 6,861,868
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	78.54
Mean single sequence MFE	-33.28
Consensus MFE	-18.90
Energy contribution	-19.78
Covariance contribution	0.88
Combinations/Pair	1.11
Mean z-score	-2.88
Structure conservation index	0.57
SVM decision value	2.65
SVM RNA-class probability	0.996072
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6861750 118 - 22224390
GCCACUUUGAUUAAUCGUAGCUGCAUAUGCAGCUGCAUUUGGUACGAAAGCCACUAGUUAAUCAGUUUCGUGCCUUUUCGUAGAUUCA--AGAAAACACCAGGCUGCGGCUUCUAAUUAU
(((...(((((((((.((((((((....))))))))...((((......))))...)))))))))....((((((((((.........--.)))).....)))).))))).......... ( -35.40)
>DroSec_CAF1 4638 118 - 1
GACAAUUUGAUUAAUCGUAGCUGCAUAUGCAGCUGCAUUAGGUACGAAAGCCACUAGUUAAUCAGUUUCGUGCCUUUUCUUAGAUACA--AGAAAGCACCAGGCUGCGGCUUCUAAUUAU
........(((((((.((((((((....))))))))....(((......)))....)))))))(((((.((((..((((((......)--))))))))).)))))............... ( -34.20)
>DroSim_CAF1 5025 118 - 1
GCCAAUUUGAUUAAUCGUAGCUGCAUAUGCAGCUGCAUUUGGUACGAAAGCCACUAGUUAAUCAGUUUCGUGCCUUUUCUUAGAUCCA--AGAAGGCACCAGACUGCGGCUUCUAAUUAU
(((.....(((((((.((((((((....))))))))...((((......))))...)))))))(((((.(((((((((..........--))))))))).)))))..))).......... ( -43.50)
>DroEre_CAF1 4619 107 - 1
CCCAAUGUGAUUAAUCGUAGCUGCAUGUGCAGCUGCAGUCGCUCCGCAAGCCACUAGCUAAUCAGUUA-----------GUAGAUCCA--AGGAAGCCCCAAACUGCGCCCUCCAAUUAU
......((((((....((((((((....))))))))))))))..((((....(((((((....)))))-----------)).......--.((.....))....))))............ ( -29.70)
>DroYak_CAF1 4604 112 - 1
CCCCAUUUGAUUAAUCGCUGCUGCAU----UGCUGCAUUUGGCUCGAAAGCCACUAGUUAAUCAUUUACGUUACUUUGCGUAGAUCCUUUACGUAGAUCCUAGUU----CUUCUAAUUAU
.......((((((((.((.((.....----.)).))...(((((....)))))...))))))))..........((((((((((...))))))))))........----........... ( -23.60)
>consensus
GCCAAUUUGAUUAAUCGUAGCUGCAUAUGCAGCUGCAUUUGGUACGAAAGCCACUAGUUAAUCAGUUUCGUGCCUUUUCGUAGAUCCA__AGAAAGCACCAGGCUGCGGCUUCUAAUUAU
.......((((((((.((((((((....))))))))....(((......)))....))))))))........................................................ (-18.90 = -19.78 +   0.88)

alignment

secondary structure

dotplot

Window 6

Location	6,861,788 – 6,861,902
Length	114
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	84.19
Mean single sequence MFE	-32.76
Consensus MFE	-20.96
Energy contribution	-22.65
Covariance contribution	1.69
Combinations/Pair	1.12
Mean z-score	-2.35
Structure conservation index	0.64
SVM decision value	0.85
SVM RNA-class probability	0.865775
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6861788 114 - 22224390
GCCAGCCAAUUUCCAGC-UGCCAUCCA---UUCUGU--AGGCCACUUUGAUUAAUCGUAGCUGCAUAUGCAGCUGCAUUUGGUACGAAAGCCACUAGUUAAUCAGUUUCGUGCCUUUUCG
(.((((.........))-)).).....---......--((((.((.(((((((((.((((((((....))))))))...((((......))))...)))))))))....))))))..... ( -33.30)
>DroSec_CAF1 4676 114 - 1
GCCAGCCAAUUUCCUGC-UGCCAUUCA---UUCUGU--AGGACAAUUUGAUUAAUCGUAGCUGCAUAUGCAGCUGCAUUAGGUACGAAAGCCACUAGUUAAUCAGUUUCGUGCCUUUUCU
......(((..((((((-.........---....))--))))....))).......((((((((....))))))))...(((((((((....(((........))))))))))))..... ( -33.02)
>DroSim_CAF1 5063 114 - 1
GCCGGCCAAUUUCCUGC-UGCCACUCA---UUCUGU--AGGCCAAUUUGAUUAAUCGUAGCUGCAUAUGCAGCUGCAUUUGGUACGAAAGCCACUAGUUAAUCAGUUUCGUGCCUUUUCU
...((((.....(((((-.........---....))--))).....(((((((((.((((((((....))))))))...((((......))))...)))))))))....).)))...... ( -34.02)
>DroYak_CAF1 4640 116 - 1
GCCAGCCAAUUUCCUGCGUGGCAUGCAACAUAAUGGAUGCCCCCAUUUGAUUAAUCGCUGCUGCAU----UGCUGCAUUUGGCUCGAAAGCCACUAGUUAAUCAUUUACGUUACUUUGCG
((((((.........)).))))..((((..(((((((((....))))((((((((.((.((.....----.)).))...(((((....)))))...))))))))....)))))..)))). ( -30.70)
>consensus
GCCAGCCAAUUUCCUGC_UGCCAUUCA___UUCUGU__AGGCCAAUUUGAUUAAUCGUAGCUGCAUAUGCAGCUGCAUUUGGUACGAAAGCCACUAGUUAAUCAGUUUCGUGCCUUUUCG
..................................(...((((....(((((((((.((((((((....))))))))....(((......)))....)))))))))......))))...). (-20.96 = -22.65 +   1.69)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:39 2006