Locus 5666

Sequence ID	X_DroMel_CAF1
Location	14,652,451 – 14,652,603
Length	152
Max. P	0.945780

overview

Window 2

Location	14,652,451 – 14,652,563
Length	112
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.58
Mean single sequence MFE	-35.49
Consensus MFE	-29.99
Energy contribution	-30.15
Covariance contribution	0.16
Combinations/Pair	1.12
Mean z-score	-1.29
Structure conservation index	0.85
SVM decision value	0.11
SVM RNA-class probability	0.587710
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14652451 112 + 22224390
UGUGAAGAGGCUGCAUUGUGCAG-----CGUGUAACUAUGGUUUUUAGCGAC---UUCGAAGGCCAAGACGGCCAAUGCACCGAGUGCUCUUACCAAUAAAUGCGAUGUGGCCAAGACGC
........(((..((((((((((-----(....(((....)))....))...---......((((.....))))..))))).....((..(((....)))..))))))..)))....... ( -32.00)
>DroSec_CAF1 121764 112 + 1
UGUGAAGAGGCUGCAUUGUGCAU-----CGUAUAACUACGGUUUUUAGCGAC---UUCGAAGGCCAAGACGGCCAAUGCACCGAGUGCUAUUACCAAUAAAUGCGAUGUGGCCAAGACGC
........(((..((((((....-----.(((....)))(((...((((.((---((((..((((.....))))..))....))))))))..))).......))))))..)))....... ( -34.50)
>DroSim_CAF1 120509 112 + 1
UGUGAAGAGGCUGCAUUGUGCAU-----CGUGUAACUAUGGUUUUUAGCGAC---UUCGAAGGCCAAGUCGGCCAAUGCACCGAGUGCUAUUACCAAUAAAUGCGAUGUGGCCAAGACGC
........(((..((((((((..-----...)).....((((...((((.((---((((..((((.....))))..))....))))))))..))))......))))))..)))....... ( -34.10)
>DroEre_CAF1 115125 112 + 1
UGUGAAGAGGCUACAUUGUUCGU--------GUAACUAUGGUUUUUAGCGACCAAUUCGAAGGCCAAGACGGCCAAUGCACCGAGUGCUAUUACCAACAAAUGCGAUGUGGCCUAGACGC
.(((...((((((((((((...(--------((.....((((...(((((...........((((.....))))...........)))))..)))))))...))))))))))))...))) ( -38.95)
>DroYak_CAF1 117806 117 + 1
UGUGAAGAGGCUGCAUUGUUCGUGUGUGUGUGUAACUAUGGUUUUUAGCGAC---UUCGAAGGCCAAGAUGGCCAAUGCACCGAGUGCUAUUACCAAUAAAUGCGAUGUGGCCUAGACGC
.(((...((((..((((((...(((..((.....))..((((...((((.((---((((..((((.....))))..))....))))))))..)))))))...))))))..))))...))) ( -37.90)
>consensus
UGUGAAGAGGCUGCAUUGUGCAU_____CGUGUAACUAUGGUUUUUAGCGAC___UUCGAAGGCCAAGACGGCCAAUGCACCGAGUGCUAUUACCAAUAAAUGCGAUGUGGCCAAGACGC
........(((((((((((..........(((....)))(((...(((((...........((((.....))))...........)))))..))).......)))))))))))....... (-29.99 = -30.15 +   0.16)

alignment

secondary structure

dotplot

Window 3

Location	14,652,486 – 14,652,603
Length	117
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.84
Mean single sequence MFE	-33.78
Consensus MFE	-33.00
Energy contribution	-33.00
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.34
Structure conservation index	0.98
SVM decision value	1.36
SVM RNA-class probability	0.945780
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14652486 117 + 22224390
GUUUUUAGCGAC---UUCGAAGGCCAAGACGGCCAAUGCACCGAGUGCUCUUACCAAUAAAUGCGAUGUGGCCAAGACGCAGGCACACAUCAAAGCGAAAUUCUCUGGAGAAACGUUUGU
.(((((((.((.---((((..((((.....))))...((((...))))................(((((((((........))).))))))....))))..)).)))))))......... ( -33.00)
>DroSec_CAF1 121799 117 + 1
GUUUUUAGCGAC---UUCGAAGGCCAAGACGGCCAAUGCACCGAGUGCUAUUACCAAUAAAUGCGAUGUGGCCAAGACGCAGGCACACAUCAAAGCGAAAUUCUCUGGAGAAACGUUGGU
.....((((.((---((((..((((.....))))..))....))))))))..((((((...((((((((((((........))).))))))...)))...((((....))))..)))))) ( -33.50)
>DroSim_CAF1 120544 117 + 1
GUUUUUAGCGAC---UUCGAAGGCCAAGUCGGCCAAUGCACCGAGUGCUAUUACCAAUAAAUGCGAUGUGGCCAAGACGCAGGCACACAUCAAAGCGAAAUUCUCUGGAGAAACGUUUGU
.(((((((.((.---((((..((((.....))))...((((...))))................(((((((((........))).))))))....))))..)).)))))))......... ( -33.00)
>DroEre_CAF1 115157 120 + 1
GUUUUUAGCGACCAAUUCGAAGGCCAAGACGGCCAAUGCACCGAGUGCUAUUACCAACAAAUGCGAUGUGGCCUAGACGCAGGCACACAUCAAAGCGAAAUUCUCUGGAGAAACGCAUCU
.......(((.....((((..((((.....))))...((((...))))................((((((((((......)))).))))))....)))).((((....)))).))).... ( -35.00)
>DroYak_CAF1 117846 117 + 1
GUUUUUAGCGAC---UUCGAAGGCCAAGAUGGCCAAUGCACCGAGUGCUAUUACCAAUAAAUGCGAUGUGGCCUAGACGCAGGCACACAUCAAAGCGAAAUUCUCUGGAGAAACCCAUUU
.(((((((.((.---((((..((((.....))))...((((...))))................((((((((((......)))).))))))....))))..)).)))))))......... ( -34.40)
>consensus
GUUUUUAGCGAC___UUCGAAGGCCAAGACGGCCAAUGCACCGAGUGCUAUUACCAAUAAAUGCGAUGUGGCCAAGACGCAGGCACACAUCAAAGCGAAAUUCUCUGGAGAAACGUUUGU
.(((((((.((....((((..((((.....))))...((((...))))................(((((((((........))).))))))....))))..)).)))))))......... (-33.00 = -33.00 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:34 2006