Locus 7428

Sequence ID	2L_DroMel_CAF1
Location	20,617,143 – 20,617,244
Length	101
Max. P	0.999293

overview

Window 0

Location	20,617,143 – 20,617,244
Length	101
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	95.35
Mean single sequence MFE	-17.11
Consensus MFE	-17.50
Energy contribution	-17.26
Covariance contribution	-0.24
Combinations/Pair	1.15
Mean z-score	-1.86
Structure conservation index	1.02
SVM decision value	3.49
SVM RNA-class probability	0.999293
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20617143 101 + 22407834
CUUUUGAAAGUAAACAACAAGCAAAAAUAAAAACAAAUAAACGACAAAGCCCCAAAAAUAAUAUGGGGGAACACGCAAAUUGUUAAGCUUCUUGUAAGCUG
........(((..((((.((((...........................(((((.........))))).((((.......))))..)))).))))..))). ( -17.00)
>DroSec_CAF1 136114 101 + 1
CUUUUGAAAGCAAACAACAAGCAAAAAUAAAACCAAAUAAACGCCAAAGCCCCAAAAAUAAUAUGGGGGAACACGCAAAUUGUUAAGCUUCUUGUAAGCUG
........(((..((((.((((...........................(((((.........))))).((((.......))))..)))).))))..))). ( -18.70)
>DroSim_CAF1 133006 101 + 1
CUUUUAAAAGUAAACAACCAGCAAAAAUAAAACCAAAUAAACGCCAAAGCCCCAAAAAUAAUAUGGGGGAACACGCAAAUUGUUAAGCUUCUUGUAAGCUG
........(((..((((..(((...........................(((((.........))))).((((.......))))..)))..))))..))). ( -15.30)
>DroEre_CAF1 120966 101 + 1
CUUUGCAGAGUAAACAACGAGCAAAAAUAAAACCAAAUGCACGCCAAAGCCCCAAAAAUAAUAUGGGGGAGCACGCAAAUUGUUAAGCUUCUUGUAAGCUG
.(((((...........((.(((..............))).))......(((((.........)))))......)))))......(((((.....))))). ( -17.54)
>DroYak_CAF1 125556 101 + 1
CUUUUCAAAGUAAACAACAAGCAAAAAUAAAACCAAAUAAACGCCAAAGCCCCAAAAAUAAUAUGGGGGAACACGCAAAUUGUUAAGCUUCUUGUAAGCUG
........(((..((((.((((...........................(((((.........))))).((((.......))))..)))).))))..))). ( -17.00)
>consensus
CUUUUCAAAGUAAACAACAAGCAAAAAUAAAACCAAAUAAACGCCAAAGCCCCAAAAAUAAUAUGGGGGAACACGCAAAUUGUUAAGCUUCUUGUAAGCUG
........(((..((((.((((...........................(((((.........))))).((((.......))))..)))).))))..))). (-17.50 = -17.26 +  -0.24)

alignment

secondary structure

dotplot

Window 1

Location	20,617,143 – 20,617,244
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	95.35
Mean single sequence MFE	-22.27
Consensus MFE	-18.52
Energy contribution	-18.72
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.83
Structure conservation index	0.83
SVM decision value	1.11
SVM RNA-class probability	0.916758
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20617143 101 - 22407834
CAGCUUACAAGAAGCUUAACAAUUUGCGUGUUCCCCCAUAUUAUUUUUGGGGCUUUGUCGUUUAUUUGUUUUUAUUUUUGCUUGUUGUUUACUUUCAAAAG
((((...((((((....(((((...(((.....(((((.........)))))......)))....)))))....))))))...)))).............. ( -21.00)
>DroSec_CAF1 136114 101 - 1
CAGCUUACAAGAAGCUUAACAAUUUGCGUGUUCCCCCAUAUUAUUUUUGGGGCUUUGGCGUUUAUUUGGUUUUAUUUUUGCUUGUUGUUUGCUUUCAAAAG
.(((..((((.((((....(((...((((....(((((.........))))).....))))....)))...........)))).))))..)))........ ( -23.76)
>DroSim_CAF1 133006 101 - 1
CAGCUUACAAGAAGCUUAACAAUUUGCGUGUUCCCCCAUAUUAUUUUUGGGGCUUUGGCGUUUAUUUGGUUUUAUUUUUGCUGGUUGUUUACUUUUAAAAG
(((((..((((((......(((...((((....(((((.........))))).....))))....)))......))))))..))))).............. ( -22.30)
>DroEre_CAF1 120966 101 - 1
CAGCUUACAAGAAGCUUAACAAUUUGCGUGCUCCCCCAUAUUAUUUUUGGGGCUUUGGCGUGCAUUUGGUUUUAUUUUUGCUCGUUGUUUACUCUGCAAAG
((((...((((((....(((....((((((((.(((((.........)))))....))))))))....)))...))))))...)))).............. ( -24.40)
>DroYak_CAF1 125556 101 - 1
CAGCUUACAAGAAGCUUAACAAUUUGCGUGUUCCCCCAUAUUAUUUUUGGGGCUUUGGCGUUUAUUUGGUUUUAUUUUUGCUUGUUGUUUACUUUGAAAAG
((((...((((((......(((...((((....(((((.........))))).....))))....)))......))))))...)))).............. ( -19.90)
>consensus
CAGCUUACAAGAAGCUUAACAAUUUGCGUGUUCCCCCAUAUUAUUUUUGGGGCUUUGGCGUUUAUUUGGUUUUAUUUUUGCUUGUUGUUUACUUUCAAAAG
((((...((((((......(((...((((....(((((.........))))).....))))....)))......))))))...)))).............. (-18.52 = -18.72 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:38 2006