Locus 6065

Sequence ID 2R_DroMel_CAF1
Location 19,084,888 – 19,084,985
Length 97
Max. P 0.880227
window9717 window9718

overview

Window 7

Location 19,084,888 – 19,084,985
Length 97
Sequences 3
Columns 100
Reading direction forward
Mean pairwise identity 81.67
Mean single sequence MFE -34.10
Consensus MFE -25.72
Energy contribution -26.17
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -2.05
Structure conservation index 0.75
SVM decision value 0.91
SVM RNA-class probability 0.880227
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19084888 97 + 20766785
AGG---GGUGAGGGGUGAGCGGUGAGACGAGGGACGAGGGACUGGCUAUCGGGAGAUGCGAGAUGGAAGCCUGUCUCAGCUCGACUAAUUGUCUCCCAAU
.((---((..(..(((((((..((((((..(((.(......((.((.(((....))))).))......)))))))))))))).)))..)..))))..... ( -33.00)
>DroSec_CAF1 27586 82 + 1
AAGAGGG------------------GACGGGAGACGAGGGACUGGCUAUCGGGAGAUGCGAGAUGGAAGCCUGUCUCAGCUCGACUAAUUGUCUCCCAAU
....(..------------------..)(((((((((.((.(.(((((((....)))..(((((((....))))))))))).).))..)))))))))... ( -32.60)
>DroSim_CAF1 28106 100 + 1
AGGAGGGGUGAGGGGCGAGUCGAGGGACUGGGGACGAGGGACUGGCUAUCGGGAGAUGCGAGAUGGAAGCCUGUCUCAGCUCGACUAAUUGUCUCCCAAU
.....(((.((.((...(((((((....((....)).(((((.(((((((....)))..........)))).)))))..)))))))..)).)).)))... ( -36.70)
>consensus
AGGAGGGGUGAGGGG_GAG__G_G_GACGGGGGACGAGGGACUGGCUAUCGGGAGAUGCGAGAUGGAAGCCUGUCUCAGCUCGACUAAUUGUCUCCCAAU
............................(((((((((.((.(.(((((((....)))..(((((((....))))))))))).).))..)))))))))... (-25.72 = -26.17 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 19,084,888 – 19,084,985
Length 97
Sequences 3
Columns 100
Reading direction reverse
Mean pairwise identity 81.67
Mean single sequence MFE -25.00
Consensus MFE -17.15
Energy contribution -16.93
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -2.02
Structure conservation index 0.69
SVM decision value 0.60
SVM RNA-class probability 0.796780
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19084888 97 - 20766785
AUUGGGAGACAAUUAGUCGAGCUGAGACAGGCUUCCAUCUCGCAUCUCCCGAUAGCCAGUCCCUCGUCCCUCGUCUCACCGCUCACCCCUCACC---CCU
...(((.(((.....)))(((((((((((((.......((.(((((....))).)).)).........))).))))))..))))..))).....---... ( -27.19)
>DroSec_CAF1 27586 82 - 1
AUUGGGAGACAAUUAGUCGAGCUGAGACAGGCUUCCAUCUCGCAUCUCCCGAUAGCCAGUCCCUCGUCUCCCGUC------------------CCCUCUU
...(((((((..((((.....))))(((.((((......(((.......))).)))).)))....)))))))...------------------....... ( -23.90)
>DroSim_CAF1 28106 100 - 1
AUUGGGAGACAAUUAGUCGAGCUGAGACAGGCUUCCAUCUCGCAUCUCCCGAUAGCCAGUCCCUCGUCCCCAGUCCCUCGACUCGCCCCUCACCCCUCCU
...(((.((.....((((((((((.((((((.......((.(((((....))).)).))..))).)))..)))...)))))))......)).)))..... ( -23.90)
>consensus
AUUGGGAGACAAUUAGUCGAGCUGAGACAGGCUUCCAUCUCGCAUCUCCCGAUAGCCAGUCCCUCGUCCCCCGUC_C_C__CUC_CCCCUCACCCCUCCU
...(((((((.....)))(((..(.(((.((((......(((.......))).)))).))))))).)))).............................. (-17.15 = -16.93 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:44 2006