Locus 5628

Sequence ID 3R_DroMel_CAF1
Location 14,823,299 – 14,823,415
Length 116
Max. P 0.824149
window9169 window9170

overview

Window 9

Location 14,823,299 – 14,823,415
Length 116
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 95.56
Mean single sequence MFE -37.11
Consensus MFE -32.86
Energy contribution -33.87
Covariance contribution 1.00
Combinations/Pair 1.05
Mean z-score -2.31
Structure conservation index 0.89
SVM decision value 0.69
SVM RNA-class probability 0.824149
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14823299 116 + 27905053
UACGAUAAGUCCCGACCAUGAUGAGAAUGUGUGUGGUCUGGC----UCUUAUCGGCACUUUGAUCGGCUUUUGAUUUUGUCACCGUUACAGGUGAUAAUAAAACGCGAACAAAUCAUUGA
..(((((((..((((((((.............)))))).)).----.)))))))....((((.(((.(.(((....((((((((......))))))))..))).)))).))))....... ( -34.62)
>DroSec_CAF1 1439 120 + 1
UCCGAUAAGUUCCGACCAUGAUGGGAAUGUGUGUGGUCUGGUCUGGUCUUAUCGGCACUUUGAUCGGCUUUUGAUUUUGUCACCGUUACAGGUGAUAAUAAAACGCGAACAAAUCAUUGA
.((((((((..(((((((.(((.(.(.....).).)))))))).)).))))))))...((((.(((.(.(((....((((((((......))))))))..))).)))).))))....... ( -37.90)
>DroSim_CAF1 1577 120 + 1
UACGAUAAGUCCCGACCAUGAUGGGAAUGUGUGUGGUCUGGUCUGGUCUUAUCGGCACUUUGAUCGGCUUUUGAUUUUGUCACCGUUACAGGUGAUAAUAAAACGCGAACAAAUCAUUGA
..(((((((.((.(((((.(((.(.(.....).).)))))))).)).)))))))....((((.(((.(.(((....((((((((......))))))))..))).)))).))))....... ( -38.80)
>consensus
UACGAUAAGUCCCGACCAUGAUGGGAAUGUGUGUGGUCUGGUCUGGUCUUAUCGGCACUUUGAUCGGCUUUUGAUUUUGUCACCGUUACAGGUGAUAAUAAAACGCGAACAAAUCAUUGA
..(((((((.((.(((((.(((.(.(.....).).)))))))).)).)))))))....((((.(((.(.(((....((((((((......))))))))..))).)))).))))....... (-32.86 = -33.87 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 14,823,299 – 14,823,415
Length 116
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 95.56
Mean single sequence MFE -29.73
Consensus MFE -25.31
Energy contribution -25.43
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.00
Structure conservation index 0.85
SVM decision value 0.03
SVM RNA-class probability 0.551097
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14823299 116 - 27905053
UCAAUGAUUUGUUCGCGUUUUAUUAUCACCUGUAACGGUGACAAAAUCAAAAGCCGAUCAAAGUGCCGAUAAGA----GCCAGACCACACACAUUCUCAUCAUGGUCGGGACUUAUCGUA
.......((((.(((.((((((((.(((((......)))))...)))..)))))))).))))....(((((((.----.((.(((((...............))))).)).))))))).. ( -28.36)
>DroSec_CAF1 1439 120 - 1
UCAAUGAUUUGUUCGCGUUUUAUUAUCACCUGUAACGGUGACAAAAUCAAAAGCCGAUCAAAGUGCCGAUAAGACCAGACCAGACCACACACAUUCCCAUCAUGGUCGGAACUUAUCGGA
.......((((.(((.((((((((.(((((......)))))...)))..)))))))).))))...((((((((.((.(((((((...............)).)))))))..)))))))). ( -30.96)
>DroSim_CAF1 1577 120 - 1
UCAAUGAUUUGUUCGCGUUUUAUUAUCACCUGUAACGGUGACAAAAUCAAAAGCCGAUCAAAGUGCCGAUAAGACCAGACCAGACCACACACAUUCCCAUCAUGGUCGGGACUUAUCGUA
.......((((.(((.((((((((.(((((......)))))...)))..)))))))).))))....(((((((.((.(((((((...............)).))))).)).))))))).. ( -29.86)
>consensus
UCAAUGAUUUGUUCGCGUUUUAUUAUCACCUGUAACGGUGACAAAAUCAAAAGCCGAUCAAAGUGCCGAUAAGACCAGACCAGACCACACACAUUCCCAUCAUGGUCGGGACUUAUCGUA
.......((((.(((.((((((((.(((((......)))))...)))..)))))))).))))....(((((((....(((((((...............)).)))))....))))))).. (-25.31 = -25.43 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:46 2006