Locus 6684

Sequence ID X_DroMel_CAF1
Location 16,696,241 – 16,696,349
Length 108
Max. P 0.574984
window10912

overview

Window 2

Location 16,696,241 – 16,696,349
Length 108
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 79.87
Mean single sequence MFE -37.62
Consensus MFE -16.95
Energy contribution -17.19
Covariance contribution 0.24
Combinations/Pair 1.07
Mean z-score -2.03
Structure conservation index 0.45
SVM decision value 0.08
SVM RNA-class probability 0.574984
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16696241 108 - 22224390
GUUCGCAACGCCCCAGUACC-----CCC-G-UCUUAUC-G-AGGGGGCGUGGCACUGGGG-GCGAACUGGAAAGCUAUAUACUCGUACGUACUAAGUUGCAUGCAACAAAUUUUAGAG
((((((....((((((((((-----(((-.-((.....-)-).)))).))...)))))))-))))))..............(((((....))...((((....))))........))) ( -36.60)
>DroSec_CAF1 12918 108 - 1
GAUCGCAACGCCCCACUACC-----CCCCC-UCCUAUC-G-AGGGGGCGUGGCGCGGGGG-GCGAACUGGAAAGCUAUAUACUAGUACGUACUAAGUUGCAUGCAACA-AUUUCAGAG
........((((((.((((.-----(((((-((.....-)-)))))).)))).....)))-)))..((((((.((((.....)))).........((((....)))).-.)))))).. ( -42.70)
>DroSim_CAF1 10133 111 - 1
GAUCGCAACGCCCCACUACC-----CCCUCAUCCUAUUCGUGGGGGGCGUGGCACGGGGG-GCGAACUGGAAAGCUAUAUACUAGUACGUACUAAGUUGCAUGCAACA-AUUUCAGAG
........((((((.(((((-----(((((((.......)))))))).)))).....)))-)))..((((((.((((.....)))).........((((....)))).-.)))))).. ( -40.90)
>DroEre_CAF1 12030 99 - 1
GAUCGCAACGCCCCCGUACC-----CCC-G-UCCUAUC-G-AGG-GGUGUGGCACGGGG--GCAAGCUGCAAAAAC------AAAAAAGUACCAAGUUGCAUGCAACC-ACUUUAGAG
....((((((((((((((((-----(((-(-......)-)-.))-))).....))))))--))..(((........------.....))).....)))))........-......... ( -35.92)
>DroYak_CAF1 12832 109 - 1
GAUCGCAACGCACCACUACCCCUCCCCC-G-UCUUAUC-G-AGGGGGCGUGGCACGGGGGAGCGAACUGAAAAAAUGA----AAAAAAGUACUAGGUUGCAUGCAACA-AUUUCAGAG
..((((..(.(.((((..((((((....-.-.......-)-)))))..))))....).)..)))).((((((...(..----..)..........((((....)))).-.)))))).. ( -32.00)
>consensus
GAUCGCAACGCCCCACUACC_____CCC_G_UCCUAUC_G_AGGGGGCGUGGCACGGGGG_GCGAACUGGAAAGCUAUAUACUAGUACGUACUAAGUUGCAUGCAACA_AUUUCAGAG
..((((.(((((((.............................))))))).))..........................................((((....))))........)). (-16.95 = -17.19 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:56 2006