Locus 5733

Sequence ID	3R_DroMel_CAF1
Location	14,947,494 – 14,947,613
Length	119
Max. P	0.908918

overview

Window 0

Location	14,947,494 – 14,947,613
Length	119
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	92.92
Mean single sequence MFE	-38.55
Consensus MFE	-31.00
Energy contribution	-32.75
Covariance contribution	1.75
Combinations/Pair	1.00
Mean z-score	-2.59
Structure conservation index	0.80
SVM decision value	1.06
SVM RNA-class probability	0.908918
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14947494 119 + 27905053
CCAACUGCCAAACUUGAAAAAUAGCUUG-AGAUGUUGUCGAUGCUGCCUGCUGCAGCAUUCCAUUUCGAGUUGUGGCUGCCACACCAUCUUCAUUUCGUUUGCUGCUGGCGGCUGGAACU
.......((...........((((((((-(((((.....((((((((.....)))))))).)))))))))))))((((((((((.((.............)).)).)))))))))).... ( -40.02)
>DroSec_CAF1 83173 120 + 1
CCAACUGCCAAACUUGAAAAAUAGCUUAAAGAUGUUGUCGAUGCUGCCUGCUGCAGCAUUACAUUUCGAGUUGUGGCUGCCACACCAUCUUCAUUUCGAUUGCUGCUGGCUGCUGGAACU
(((...(((((((((((((.(((((........))))).((((((((.....))))))))...))))))))).)))).(((((((.(((........))).).)).))))...))).... ( -37.60)
>DroSim_CAF1 76097 120 + 1
CCAACUGCCAAACUUGAAAAAUAGCUUAAAGAUGUUGUCGAUGCUGCCUGCAGCAGCAUUCCAUUUCGAGUUGUGGCUGCCACACCAUCUUCAUUUCGAUUGCUGCUGGCUGCUGGAACU
(((...(((((((((((((.(((((........))))).((((((((.....))))))))...))))))))).)))).(((((((.(((........))).).)).))))...))).... ( -37.20)
>DroYak_CAF1 80191 113 + 1
CCAAGUGCCAAACUUGAAAAAUAGCUUAAAGAUGUUGUCGAUGCU----GCUGCAGCAUUCCAUUUCGAGUUGCGGCUGCCACACCAUCUUCAUUUCGAUUG---GCGGCUGCUGGAACU
...(((.((((((((((((.(((((........))))).((((((----(...)))))))...)))))))))((((((((((....(((........)))))---))))))))))).))) ( -39.40)
>consensus
CCAACUGCCAAACUUGAAAAAUAGCUUAAAGAUGUUGUCGAUGCUGCCUGCUGCAGCAUUCCAUUUCGAGUUGUGGCUGCCACACCAUCUUCAUUUCGAUUGCUGCUGGCUGCUGGAACU
(((...(((((((((((((.(((((........))))).((((((((.....))))))))...))))))))).)))).((((((.((...((.....)).)).)).))))...))).... (-31.00 = -32.75 +   1.75)

alignment

secondary structure

dotplot

Window 1

Location	14,947,494 – 14,947,613
Length	119
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	92.92
Mean single sequence MFE	-34.70
Consensus MFE	-32.87
Energy contribution	-33.31
Covariance contribution	0.44
Combinations/Pair	1.08
Mean z-score	-1.27
Structure conservation index	0.95
SVM decision value	-0.03
SVM RNA-class probability	0.518753
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14947494 119 - 27905053
AGUUCCAGCCGCCAGCAGCAAACGAAAUGAAGAUGGUGUGGCAGCCACAACUCGAAAUGGAAUGCUGCAGCAGGCAGCAUCGACAACAUCU-CAAGCUAUUUUUCAAGUUUGGCAGUUGG
....(((((.((((.((.((.............)).)))))).((((.((((.(((((((.(((((((.....))))))).((.......)-)...)))))))...)))))))).))))) ( -34.42)
>DroSec_CAF1 83173 120 - 1
AGUUCCAGCAGCCAGCAGCAAUCGAAAUGAAGAUGGUGUGGCAGCCACAACUCGAAAUGUAAUGCUGCAGCAGGCAGCAUCGACAACAUCUUUAAGCUAUUUUUCAAGUUUGGCAGUUGG
....(((((.((((.((.((.((........)))).)))))).((((.((((.((((.((((((((((.....))))))).((.....)).......))).)))).)))))))).))))) ( -37.70)
>DroSim_CAF1 76097 120 - 1
AGUUCCAGCAGCCAGCAGCAAUCGAAAUGAAGAUGGUGUGGCAGCCACAACUCGAAAUGGAAUGCUGCUGCAGGCAGCAUCGACAACAUCUUUAAGCUAUUUUUCAAGUUUGGCAGUUGG
....(((((.((((.((.((.((........)))).)))))).((((.((((.(((((((.(((((((.....))))))).((.....))......)))))))...)))))))).))))) ( -38.10)
>DroYak_CAF1 80191 113 - 1
AGUUCCAGCAGCCGC---CAAUCGAAAUGAAGAUGGUGUGGCAGCCGCAACUCGAAAUGGAAUGCUGCAGC----AGCAUCGACAACAUCUUUAAGCUAUUUUUCAAGUUUGGCACUUGG
....((((..(((((---(.(((........))).).))))).((((.((((.(((((((.((((((...)----))))).((.....))......)))))))...))))))))..)))) ( -28.60)
>consensus
AGUUCCAGCAGCCAGCAGCAAUCGAAAUGAAGAUGGUGUGGCAGCCACAACUCGAAAUGGAAUGCUGCAGCAGGCAGCAUCGACAACAUCUUUAAGCUAUUUUUCAAGUUUGGCAGUUGG
....(((((.((((.............((((((((.(((((...)))))..((((.......((((((.....))))))))))...))))))))((((........)))))))).))))) (-32.87 = -33.31 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:09 2006