Locus 4570

Sequence ID 3R_DroMel_CAF1
Location 12,071,179 – 12,071,299
Length 120
Max. P 0.677369
window7484 window7485

overview

Window 4

Location 12,071,179 – 12,071,299
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 99.44
Mean single sequence MFE -24.75
Consensus MFE -24.75
Energy contribution -24.75
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.41
Structure conservation index 1.00
SVM decision value 0.12
SVM RNA-class probability 0.593440
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12071179 120 + 27905053
UCUUCCCAGAGCCAAAGGGCAUUUCCCGUUCGUUGCAGUCUUGAUUCUGAGCGCCUUAUCUUUAUUCCUUUUCUUGGUCUGCUUUUUUAAUUGUUCUUUAUGGUCAUAUGCUGCUCUGAA
......((((((.....(((((...((((.....(((((..(((....(((((((....................)))..))))..)))))))).....))))....))))))))))).. ( -24.75)
>DroSec_CAF1 7708 120 + 1
UCUUCCCAGAGCCAAAGGGCAUUUCCCGUUCGUUGCAGUCUUGAUUCUGAGCGCCUUAUCUUUAUUCCUUUUCUUGGUCUGCUUUUUUAAUUGUUCUUUAUGGUUAUAUGCUGCUCUGAA
......((((((.....(((((...((((.....(((((..(((....(((((((....................)))..))))..)))))))).....))))....))))))))))).. ( -24.75)
>DroSim_CAF1 8144 120 + 1
UCUUCCCAGAGCCAAAGGGCAUUUCCCGUUCGUUGCAGUCUUGAUUCUGAGCGCCUUAUCUUUAUUCCUUUUCUUGGUCUGCUUUUUUAAUUGUUCUUUAUGGUUAUAUGCUGCUCUGAA
......((((((.....(((((...((((.....(((((..(((....(((((((....................)))..))))..)))))))).....))))....))))))))))).. ( -24.75)
>consensus
UCUUCCCAGAGCCAAAGGGCAUUUCCCGUUCGUUGCAGUCUUGAUUCUGAGCGCCUUAUCUUUAUUCCUUUUCUUGGUCUGCUUUUUUAAUUGUUCUUUAUGGUUAUAUGCUGCUCUGAA
......((((((.....(((((...((((.....(((((..(((....(((((((....................)))..))))..)))))))).....))))....))))))))))).. (-24.75 = -24.75 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 12,071,179 – 12,071,299
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 99.44
Mean single sequence MFE -23.70
Consensus MFE -23.70
Energy contribution -23.70
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.52
Structure conservation index 1.00
SVM decision value 0.30
SVM RNA-class probability 0.677369
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12071179 120 - 27905053
UUCAGAGCAGCAUAUGACCAUAAAGAACAAUUAAAAAAGCAGACCAAGAAAAGGAAUAAAGAUAAGGCGCUCAGAAUCAAGACUGCAACGAACGGGAAAUGCCCUUUGGCUCUGGGAAGA
((((((((..............................((((.((.......))......(((............)))....))))..((((.(((.....))))))))))))))).... ( -23.70)
>DroSec_CAF1 7708 120 - 1
UUCAGAGCAGCAUAUAACCAUAAAGAACAAUUAAAAAAGCAGACCAAGAAAAGGAAUAAAGAUAAGGCGCUCAGAAUCAAGACUGCAACGAACGGGAAAUGCCCUUUGGCUCUGGGAAGA
((((((((..............................((((.((.......))......(((............)))....))))..((((.(((.....))))))))))))))).... ( -23.70)
>DroSim_CAF1 8144 120 - 1
UUCAGAGCAGCAUAUAACCAUAAAGAACAAUUAAAAAAGCAGACCAAGAAAAGGAAUAAAGAUAAGGCGCUCAGAAUCAAGACUGCAACGAACGGGAAAUGCCCUUUGGCUCUGGGAAGA
((((((((..............................((((.((.......))......(((............)))....))))..((((.(((.....))))))))))))))).... ( -23.70)
>consensus
UUCAGAGCAGCAUAUAACCAUAAAGAACAAUUAAAAAAGCAGACCAAGAAAAGGAAUAAAGAUAAGGCGCUCAGAAUCAAGACUGCAACGAACGGGAAAUGCCCUUUGGCUCUGGGAAGA
((((((((..............................((((.((.......))......(((............)))....))))..((((.(((.....))))))))))))))).... (-23.70 = -23.70 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:59 2006