Locus 2601

Sequence ID X_DroMel_CAF1
Location 6,952,389 – 6,952,500
Length 111
Max. P 0.984028
window4249 window4250

overview

Window 9

Location 6,952,389 – 6,952,500
Length 111
Sequences 3
Columns 111
Reading direction forward
Mean pairwise identity 93.92
Mean single sequence MFE -28.90
Consensus MFE -27.07
Energy contribution -27.07
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -4.19
Structure conservation index 0.94
SVM decision value 1.96
SVM RNA-class probability 0.984028
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6952389 111 + 22224390
GGCAAAGCAACUAAAAUCGAAAUAACGAUAUCGUUAUCUCACGAUCGUUUUAUGACAAACAAAUUGGACCGUUUCCCCACCCAUUUAAGUUGCUUUGCCUCUUUCGAUACC
((((((((((((.((((.((.((((((....)))))).))(((.(((((....)))...(.....))).)))..........)))).))))))))))))............ ( -29.80)
>DroSec_CAF1 1951 107 + 1
GGCAAAGCAACUAAAAUCGAAAUUACGAUAUCGUUAUCUCACGAUCGUUUUAUGACAAACAAAUUGGAUCGUUUCCC----CAUUCAAGUUGCUUUGCCUUUUACGAUACC
((((((((((((......((.((.(((....))).)).))(((((((((....)))...(.....))))))).....----......))))))))))))............ ( -29.80)
>DroSim_CAF1 1942 107 + 1
GGCAAAGCAACUAAAAUCGAAAUUACGAUAUCGUUAUCUCACGAUCGUUUUAUGACAAACAAAUUGGACCGUUUCCC----CAUUCAAGUUGCUUUGCCUUUUACGAAACC
((((((((((((....(((.((..((((..((((......)))))))).)).)))..........(((.....))).----......))))))))))))............ ( -27.10)
>consensus
GGCAAAGCAACUAAAAUCGAAAUUACGAUAUCGUUAUCUCACGAUCGUUUUAUGACAAACAAAUUGGACCGUUUCCC____CAUUCAAGUUGCUUUGCCUUUUACGAUACC
((((((((((((....(((.....((((..((((......))))))))....)))..........(((.....)))...........))))))))))))............ (-27.07 = -27.07 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 6,952,389 – 6,952,500
Length 111
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 93.92
Mean single sequence MFE -36.93
Consensus MFE -34.27
Energy contribution -33.83
Covariance contribution -0.44
Combinations/Pair 1.06
Mean z-score -4.36
Structure conservation index 0.93
SVM decision value 1.80
SVM RNA-class probability 0.977920
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6952389 111 - 22224390
GGUAUCGAAAGAGGCAAAGCAACUUAAAUGGGUGGGGAAACGGUCCAAUUUGUUUGUCAUAAAACGAUCGUGAGAUAACGAUAUCGUUAUUUCGAUUUUAGUUGCUUUGCC
....((....))((((((((((((.((((.((...(....)...))...((((((......))))))...((((((((((....)))))))))))))).)))))))))))) ( -40.00)
>DroSec_CAF1 1951 107 - 1
GGUAUCGUAAAAGGCAAAGCAACUUGAAUG----GGGAAACGAUCCAAUUUGUUUGUCAUAAAACGAUCGUGAGAUAACGAUAUCGUAAUUUCGAUUUUAGUUGCUUUGCC
............((((((((((((.((((.----(..(.(((((......(((((......)))))(((((......))))))))))..)..).)))).)))))))))))) ( -35.70)
>DroSim_CAF1 1942 107 - 1
GGUUUCGUAAAAGGCAAAGCAACUUGAAUG----GGGAAACGGUCCAAUUUGUUUGUCAUAAAACGAUCGUGAGAUAACGAUAUCGUAAUUUCGAUUUUAGUUGCUUUGCC
............((((((((((((.((((.----(..(.(((((......(((((......)))))(((((......))))))))))..)..).)))).)))))))))))) ( -35.10)
>consensus
GGUAUCGUAAAAGGCAAAGCAACUUGAAUG____GGGAAACGGUCCAAUUUGUUUGUCAUAAAACGAUCGUGAGAUAACGAUAUCGUAAUUUCGAUUUUAGUUGCUUUGCC
............((((((((((((.((((..........((((((...(((((.....)))))..))))))(((((.(((....))).))))).)))).)))))))))))) (-34.27 = -33.83 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:45 2006