Locus 5881

Sequence ID 3R_DroMel_CAF1
Location 15,437,242 – 15,437,360
Length 118
Max. P 0.984118
window9608 window9609

overview

Window 8

Location 15,437,242 – 15,437,360
Length 118
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 77.34
Mean single sequence MFE -28.57
Consensus MFE -17.17
Energy contribution -17.32
Covariance contribution 0.14
Combinations/Pair 1.39
Mean z-score -2.22
Structure conservation index 0.60
SVM decision value 1.44
SVM RNA-class probability 0.954418
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15437242 118 + 27905053
UUGAACAGUGCCCAAAAGAAAUCCUCAGAUACCUUUAUGGGUAUGUUGAGGACUCCAAGACUGAGAAAGUUCACAAUUAUUCUAUUGAUCAAAUCGUGAGUUGCAAUGAUACUGAGAU
.....((((...(((.((((.(((((((((((((....)))))).)))))))......((((.....))))........)))).))).....(((((........))))))))).... ( -27.70)
>DroSec_CAF1 189371 118 + 1
UUGAACAGUGCCCAAAAGAAAUCCUCAGAUACCUUCAUGGGUAUGUUGAGGACUCCAAGACUGAGAAAGUUCACAAUUAUUCUUUUGAUCAAAUCGUGAGUUACAAUAAUACUGAGAU
.....(((((..((((((((.(((((((((((((....)))))).)))))))......((((.....))))........)))))))).......(....).........))))).... ( -29.80)
>DroSim_CAF1 195206 117 + 1
UUGAACAGUGCCCAAAAGAAAUCCUCAGAUACCUCCUUGGGUAUGUUGAGGACUCCAAGACUGAAAAAGUUUACA-UUAAUCUAUUGAUCAAAUCGUGGGUUANNNNNNNNNNNNNNN
.........(((((...((..(((((((((((((....)))))).))))))).....(((((.....)))))...-.................)).)))))................. ( -25.80)
>DroEre_CAF1 185926 118 + 1
UUGAAUAGUGGCCAAAAAAAGUCCGCAGACACCUUUAUGGGUAUGUUGCGGACUUCAAGACUGAGAAAGUUCACCAUUAUUCUAUUGAUCAAAUCGUGAGUUGAAGUGGUACCAAAAU
..(((((((((.......((((((((((..((((....))))...))))))))))...((((.....))))..))))))))).....((((..(((.....)))..))))........ ( -34.80)
>DroYak_CAF1 211332 118 + 1
UUGAAUAGUACCCAAAAAAAAUCCUCAGACACCUUUAUGGGUAUGUUGAGGACUUCAAGACUGCGAAAGUUUACCAUUAUUCUAUUGAUUAAAUCGUGAGUUUAAACGAUACUAAAAU
..(((((((............(((((((..((((....))))...))))))).....(((((.....)))))...)))))))(((((.(((((.(....)))))).)))))....... ( -26.80)
>DroAna_CAF1 183263 117 + 1
CUAAAAUCGGUGGAGAUCAAGUCCUCAGAUACUUUCAUGGGCAUGCUGAGGACACCAAGACUGAGAAAAUUUACCAUAAUCCUCUUGAUCAAAUCGUAAGUUUUCUAUUUUUAUUCU-
........(((((((((...((((((((((.(((....))).)).))))))))..........(((((((((((.((.(((.....)))...)).))))))))))))))))))))..- ( -26.50)
>consensus
UUGAACAGUGCCCAAAAGAAAUCCUCAGAUACCUUCAUGGGUAUGUUGAGGACUCCAAGACUGAGAAAGUUCACAAUUAUUCUAUUGAUCAAAUCGUGAGUUAAAAUGAUACUAAAAU
.....(((((...........(((((((((((((....)))))).))))))).................(((((.(((..((....))...))).))))).........))))).... (-17.17 = -17.32 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 15,437,242 – 15,437,360
Length 118
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 77.34
Mean single sequence MFE -29.47
Consensus MFE -20.33
Energy contribution -20.37
Covariance contribution 0.03
Combinations/Pair 1.36
Mean z-score -2.57
Structure conservation index 0.69
SVM decision value 1.96
SVM RNA-class probability 0.984118
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15437242 118 - 27905053
AUCUCAGUAUCAUUGCAACUCACGAUUUGAUCAAUAGAAUAAUUGUGAACUUUCUCAGUCUUGGAGUCCUCAACAUACCCAUAAAGGUAUCUGAGGAUUUCUUUUGGGCACUGUUCAA
....((((...........((((((((...((....))..)))))))).........((((.((((((((((..(((((......))))).))))))))))....))))))))..... ( -32.40)
>DroSec_CAF1 189371 118 - 1
AUCUCAGUAUUAUUGUAACUCACGAUUUGAUCAAAAGAAUAAUUGUGAACUUUCUCAGUCUUGGAGUCCUCAACAUACCCAUGAAGGUAUCUGAGGAUUUCUUUUGGGCACUGUUCAA
....((((...........((((((((...((....))..)))))))).........((((.((((((((((..(((((......))))).))))))))))....))))))))..... ( -32.40)
>DroSim_CAF1 195206 117 - 1
NNNNNNNNNNNNNNNUAACCCACGAUUUGAUCAAUAGAUUAA-UGUAAACUUUUUCAGUCUUGGAGUCCUCAACAUACCCAAGGAGGUAUCUGAGGAUUUCUUUUGGGCACUGUUCAA
..................((((....((((((....))))))-...................((((((((((..(((((......))))).))))))))))...)))).......... ( -26.20)
>DroEre_CAF1 185926 118 - 1
AUUUUGGUACCACUUCAACUCACGAUUUGAUCAAUAGAAUAAUGGUGAACUUUCUCAGUCUUGAAGUCCGCAACAUACCCAUAAAGGUGUCUGCGGACUUUUUUUGGCCACUAUUCAA
...(((((..((..((.......))..)))))))..(((((.((((((....)).(((....((((((((((..(((((......))))).))))))))))..))))))).))))).. ( -30.70)
>DroYak_CAF1 211332 118 - 1
AUUUUAGUAUCGUUUAAACUCACGAUUUAAUCAAUAGAAUAAUGGUAAACUUUCGCAGUCUUGAAGUCCUCAACAUACCCAUAAAGGUGUCUGAGGAUUUUUUUUGGGUACUAUUCAA
....((((((((((((...(((..((((........))))..)))))))).....(((....((((((((((..(((((......))))).))))))))))..))))))))))..... ( -27.60)
>DroAna_CAF1 183263 117 - 1
-AGAAUAAAAAUAGAAAACUUACGAUUUGAUCAAGAGGAUUAUGGUAAAUUUUCUCAGUCUUGGUGUCCUCAGCAUGCCCAUGAAAGUAUCUGAGGACUUGAUCUCCACCGAUUUUAG
-....(((((..((((((.((((.((..((((.....)))))).)))).)))))).....(((((((((((((.((((........)))))))))))).........)))))))))). ( -27.50)
>consensus
AUCUCAGUAUCAUUGAAACUCACGAUUUGAUCAAUAGAAUAAUGGUAAACUUUCUCAGUCUUGGAGUCCUCAACAUACCCAUAAAGGUAUCUGAGGAUUUCUUUUGGGCACUGUUCAA
...................((((.(((...((....))..))).)))).........((((.((((((((((..(((((......))))).))))))))))....))))......... (-20.33 = -20.37 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:49 2006