Locus 5432

Sequence ID 2R_DroMel_CAF1
Location 17,487,007 – 17,487,124
Length 117
Max. P 0.607720
window8664 window8665

overview

Window 4

Location 17,487,007 – 17,487,124
Length 117
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 76.87
Mean single sequence MFE -31.05
Consensus MFE -17.44
Energy contribution -20.17
Covariance contribution 2.72
Combinations/Pair 1.08
Mean z-score -1.55
Structure conservation index 0.56
SVM decision value -0.00
SVM RNA-class probability 0.532675
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17487007 117 + 20766785
AGUUCCACUGCAGGACUAUGUUGUACUUCAUGUAGCCAUCUUCCAUGAUCCGAGGCACCAUGAAGUACAAGUUUAGAAACAGGAAUAUGCCCACAAAGAAACUGUAGAUGGUGUAAG
....(((((((((..(((..((((((((((((..((((((......)))....)))..))))))))))))...))).....((.......)).........)))))).)))...... ( -35.70)
>DroSec_CAF1 15109 117 + 1
AGUUCCACUGCAGGACUAUGUUGUACUUCAUGUAGCCUUCUUCCAUGAUCCGGGGCACCAUGAAGUACAAGUUCAGAAACAGGAAUAUACCCACAAAAAAGCUGUAGGUUGUGUAAG
.(((((....(.(((((....(((((((((((..((((((......))....))))..)))))))))))))))).).....)))))..(((.(((.......))).)))........ ( -32.20)
>DroSim_CAF1 27240 117 + 1
AGUUCCACUGCAGGACUAUGUUGUACUUCAUAUAGCCCUCUUCCAUGAUCCGGGGCACCAUGAAGUACAAGUUCAGAAACAGGAAUAUGCCCACAAAAAAGCUGUAGAUUGUGUAAG
.......((((((.......(((((((((((...(((((..((...))...)))))...)))))))))))((((........))))...............)))))).......... ( -30.20)
>DroEre_CAF1 17708 93 + 1
AGUUCCACUGCAGGACUAUGUUGUACUUCAUGUAGCCAUCUUCUAUGAGCCGGGGCACCAUGUAGUACACGUUCAGGAACAGGAAUAUGCCUA------------------------
.(((((...(((......)))((((((.((((..(((.((......)).....)))..)))).))))))......)))))(((......))).------------------------ ( -26.70)
>DroYak_CAF1 23314 117 + 1
AGCUCCACUGCAGCACUAUGUUGGACUUCAUGUAGCCAUCUUGCACGAUCUGGGGCACCACGUAGUACAAGUUGAGAAACAGGAAUAUGCCUACAAAGAAGCUGUAGAAUGUGUAAG
.......(((((((.((.(((.((..(((.(((..(((.((((.((.((.(((....))).)).)).)))).)).)..))).)))....)).))).))..))))))).......... ( -30.20)
>DroAna_CAF1 17867 117 + 1
AGUUCCACUGCAGAAUGAUGUUGUACUUGAUAUAGCCAUCGAGAACGGCUUUGGGAAACAAGAAGUAGAUGCUUAGCAUGAGGCAGAUGCUUAGGCAGAGACUGUAGAGCAAGUAGG
.......((((((......(((((.((((((......)))))).)))))(((((....)...(((((..(((((......)))))..)))))...))))..)))))).......... ( -31.30)
>consensus
AGUUCCACUGCAGGACUAUGUUGUACUUCAUGUAGCCAUCUUCCAUGAUCCGGGGCACCAUGAAGUACAAGUUCAGAAACAGGAAUAUGCCCACAAAGAAGCUGUAGAUUGUGUAAG
.......((((((.......((((((((((((..(((.((......)).....)))..))))))))))))...........((......))..........)))))).......... (-17.44 = -20.17 +   2.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 17,487,007 – 17,487,124
Length 117
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 76.87
Mean single sequence MFE -29.67
Consensus MFE -17.59
Energy contribution -20.44
Covariance contribution 2.85
Combinations/Pair 1.14
Mean z-score -1.49
Structure conservation index 0.59
SVM decision value 0.15
SVM RNA-class probability 0.607720
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17487007 117 - 20766785
CUUACACCAUCUACAGUUUCUUUGUGGGCAUAUUCCUGUUUCUAAACUUGUACUUCAUGGUGCCUCGGAUCAUGGAAGAUGGCUACAUGAAGUACAACAUAGUCCUGCAGUGGAACU
..............((((((.((((((((........(((....)))((((((((((((..(((((...........)).)))..))))))))))))....)))).)))).)))))) ( -35.10)
>DroSec_CAF1 15109 117 - 1
CUUACACAACCUACAGCUUUUUUGUGGGUAUAUUCCUGUUUCUGAACUUGUACUUCAUGGUGCCCCGGAUCAUGGAAGAAGGCUACAUGAAGUACAACAUAGUCCUGCAGUGGAACU
........((((((((.....))))))))...(((((((..(((...((((((((((((..((((((.....))).....)))..))))))))))))..)))....)))).)))... ( -36.90)
>DroSim_CAF1 27240 117 - 1
CUUACACAAUCUACAGCUUUUUUGUGGGCAUAUUCCUGUUUCUGAACUUGUACUUCAUGGUGCCCCGGAUCAUGGAAGAGGGCUAUAUGAAGUACAACAUAGUCCUGCAGUGGAACU
.........(((((.((....(((((((((......)))).......((((((((((((..(((((...........).))))..)))))))))))))))))....)).)))))... ( -33.00)
>DroEre_CAF1 17708 93 - 1
------------------------UAGGCAUAUUCCUGUUCCUGAACGUGUACUACAUGGUGCCCCGGCUCAUAGAAGAUGGCUACAUGAAGUACAACAUAGUCCUGCAGUGGAACU
------------------------........(((((((..(((....((((((.((((..(((....((......))..)))..)))).))))))...)))....)))).)))... ( -22.00)
>DroYak_CAF1 23314 117 - 1
CUUACACAUUCUACAGCUUCUUUGUAGGCAUAUUCCUGUUUCUCAACUUGUACUACGUGGUGCCCCAGAUCGUGCAAGAUGGCUACAUGAAGUCCAACAUAGUGCUGCAGUGGAGCU
..............((((((.((((((.(((.(((.(((...(((.(((((((.(..(((....)))..).))))))).)))..))).)))(.....)...))))))))).)))))) ( -29.90)
>DroAna_CAF1 17867 117 - 1
CCUACUUGCUCUACAGUCUCUGCCUAAGCAUCUGCCUCAUGCUAAGCAUCUACUUCUUGUUUCCCAAAGCCGUUCUCGAUGGCUAUAUCAAGUACAACAUCAUUCUGCAGUGGAACU
.(((((.((...........(((...(((((.......)))))..)))..(((((..(((.......(((((((...))))))))))..)))))............))))))).... ( -21.11)
>consensus
CUUACACAAUCUACAGCUUCUUUGUAGGCAUAUUCCUGUUUCUGAACUUGUACUUCAUGGUGCCCCGGAUCAUGGAAGAUGGCUACAUGAAGUACAACAUAGUCCUGCAGUGGAACU
.........(((((((.....)))))))....(((((((........((((((((((((..(((................)))..)))))))))))).........)))).)))... (-17.59 = -20.44 +   2.85)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:40 2006