Locus 1484

Sequence ID 3R_DroMel_CAF1
Location 4,288,308 – 4,288,443
Length 135
Max. P 0.988254
window2466 window2467 window2468

overview

Window 6

Location 4,288,308 – 4,288,408
Length 100
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.03
Mean single sequence MFE -25.02
Consensus MFE -11.82
Energy contribution -12.42
Covariance contribution 0.60
Combinations/Pair 1.12
Mean z-score -2.80
Structure conservation index 0.47
SVM decision value 2.11
SVM RNA-class probability 0.988254
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4288308 100 - 27905053
ACAUGAGCCCAUGGGUAUUUCAGCAAUAAAUAAUUGUUUAUUAUUAAACAAUUACACAAUAAUAGCGCCAUACAG----------------UUGGA---UGGUUCAUUAUUGUUAUGUG-
(((((((((....)))..............((((((((((....))))))))))..(((((((.(.(((((.(..----------------..).)---)))).)))))))))))))).- ( -24.20)
>DroSec_CAF1 89755 100 - 1
ACAUGAGCCCAUGGUUAUUUCAGCAAUAAAUAAUUGUUUAUUAUUAAACAAUUACACAAUAAUAGCAGCACACAG----------------UUGGG---UGGGUCAUUGUUGUUGUGUA-
.((((....))))..................(((((((((....)))))))))((((((((((((..((.(((..----------------....)---)).))..)))))))))))).- ( -25.70)
>DroSim_CAF1 89211 100 - 1
ACAUGAGCCCAUGGUUAUUUCAGCAAUAAAUAAUUGUUUAUUAUUAAACAAUUACACAAUAAUAGCAGCACACAG----------------UUGGG---UGGGUCAUUGUUGUUGUGUA-
.((((....))))..................(((((((((....)))))))))((((((((((((..((.(((..----------------....)---)).))..)))))))))))).- ( -25.70)
>DroEre_CAF1 92813 108 - 1
ACAUGAGCCCA------UUUCAGCAAUAAAUAAAUGUUUAUUAUUAAACAAUUAUACAAUAAUAGCACCACACAAUUGUACCACGCAG---UUGGG---UGGGCCAUUGAUGUUAUGUAA
((((((((...------.....)).....((((.((((((....)))))).)))).((.((((.((.((((.(((((((.....))))---))).)---))))).)))).)))))))).. ( -26.90)
>DroYak_CAF1 92585 114 - 1
ACAUGAGCCCAUGGUUAUUCCAGCAAUAAAUAAUUGUUUAUUAUUAAACAAUUAAACAAUAAUAGCACCACACAAUAGC-CCACAUUGAUGUUAUGUAAUAUGGCAUUG-UGUUAU----
.((((....))))((((((..(....)...((((((((((....))))))))))......))))))...(((((((.((-(.((((.......)))).....)))))))-)))...---- ( -22.60)
>consensus
ACAUGAGCCCAUGGUUAUUUCAGCAAUAAAUAAUUGUUUAUUAUUAAACAAUUACACAAUAAUAGCACCACACAG________________UUGGG___UGGGUCAUUGUUGUUAUGUA_
.((((....))))........((((((((.((((((((((....))))))))))......................................(((........)))))))))))...... (-11.82 = -12.42 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 4,288,333 – 4,288,443
Length 110
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 86.31
Mean single sequence MFE -22.94
Consensus MFE -17.06
Energy contribution -17.06
Covariance contribution 0.00
Combinations/Pair 1.21
Mean z-score -1.52
Structure conservation index 0.74
SVM decision value -0.05
SVM RNA-class probability 0.509652
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4288333 110 + 27905053
-----CUGUAUGGCGCUAUUAUUGUGUAAUUGUUUAAUAAUAAACAAUUAUUUAUUGCUGAAAUACCCAUGGGCUCAUGUAAAGUAUAUAUCAUCGCCGCAUGAUCUACUCCAAG
-----..((((..(((...((....(((((((((((....))))))))))).))..)).)..)))).(((((((..(((((.....)))))....))).))))............ ( -20.50)
>DroSec_CAF1 89780 110 + 1
-----CUGUGUGCUGCUAUUAUUGUGUAAUUGUUUAAUAAUAAACAAUUAUUUAUUGCUGAAAUAACCAUGGGCUCAUGUAAAGUAUAUAUCAGCGCCGCAUGAUCUAAUUAAAG
-----....((((.((.........(((((((((((....))))))))))).....(((((.(((((((((....))))....)).))).))))))).))))............. ( -23.70)
>DroSim_CAF1 89236 109 + 1
-----CUGUGUGCUGCUAUUAUUGUGUAAUUGUUUAAUAAUAAACAAUUAUUUAUUGCUGAAAUAACCAUGGGCUCAUGUUAAGUAUAUAUCAGCGCCGCAUGAUCUAAU-AAAG
-----....((((.((.........(((((((((((....))))))))))).....(((((.(((((((((....))))....)).))).))))))).))))........-.... ( -23.70)
>DroEre_CAF1 92847 109 + 1
UACAAUUGUGUGGUGCUAUUAUUGUAUAAUUGUUUAAUAAUAAACAUUUAUUUAUUGCUGAAA------UGGGCUCAUGUGAAAUAUUUAUCAUCACCACAUGAUCUAAUUAAAG
.(((((((((..(((....)))..)))))))))(((.(((((((......))))))).)))..------((((.(((((((................)))))))))))....... ( -21.09)
>DroYak_CAF1 92620 114 + 1
-GCUAUUGUGUGGUGCUAUUAUUGUUUAAUUGUUUAAUAAUAAACAAUUAUUUAUUGCUGGAAUAACCAUGGGCUCAUGUAAAGUAUUCAACAUCACCGCAUAAUCUAAUUUAAG
-...(((((((((((.......((..((((((((((....))))))))))..))......(((((..((((....)))).....))))).....))))))))))).......... ( -25.70)
>consensus
_____CUGUGUGGUGCUAUUAUUGUGUAAUUGUUUAAUAAUAAACAAUUAUUUAUUGCUGAAAUAACCAUGGGCUCAUGUAAAGUAUAUAUCAUCGCCGCAUGAUCUAAUUAAAG
......(((((((((...........((((((((((....))))))))))(((((.(((.(........).)))....)))))...........)))))))))............ (-17.06 = -17.06 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 4,288,333 – 4,288,443
Length 110
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 86.31
Mean single sequence MFE -22.51
Consensus MFE -13.72
Energy contribution -14.76
Covariance contribution 1.04
Combinations/Pair 1.09
Mean z-score -2.42
Structure conservation index 0.61
SVM decision value 0.11
SVM RNA-class probability 0.590509
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4288333 110 - 27905053
CUUGGAGUAGAUCAUGCGGCGAUGAUAUAUACUUUACAUGAGCCCAUGGGUAUUUCAGCAAUAAAUAAUUGUUUAUUAUUAAACAAUUACACAAUAAUAGCGCCAUACAG-----
.((((((((..(((((.(((.(((.((.......)))))..)))))))).)))))))).......((((((((((....)))))))))).....................----- ( -23.50)
>DroSec_CAF1 89780 110 - 1
CUUUAAUUAGAUCAUGCGGCGCUGAUAUAUACUUUACAUGAGCCCAUGGUUAUUUCAGCAAUAAAUAAUUGUUUAUUAUUAAACAAUUACACAAUAAUAGCAGCACACAG-----
..............(((.(((((((.(((.......((((....))))..))).)))))......((((((((((....))))))))))..........)).))).....----- ( -23.80)
>DroSim_CAF1 89236 109 - 1
CUUU-AUUAGAUCAUGCGGCGCUGAUAUAUACUUAACAUGAGCCCAUGGUUAUUUCAGCAAUAAAUAAUUGUUUAUUAUUAAACAAUUACACAAUAAUAGCAGCACACAG-----
....-.........(((.(((((((.(((.......((((....))))..))).)))))......((((((((((....))))))))))..........)).))).....----- ( -23.80)
>DroEre_CAF1 92847 109 - 1
CUUUAAUUAGAUCAUGUGGUGAUGAUAAAUAUUUCACAUGAGCCCA------UUUCAGCAAUAAAUAAAUGUUUAUUAUUAAACAAUUAUACAAUAAUAGCACCACACAAUUGUA
.........(((..((((((((((((((((((((.......((...------.....)).......)))))))))))))......(((((...)))))..)))))))..)))... ( -18.34)
>DroYak_CAF1 92620 114 - 1
CUUAAAUUAGAUUAUGCGGUGAUGUUGAAUACUUUACAUGAGCCCAUGGUUAUUCCAGCAAUAAAUAAUUGUUUAUUAUUAAACAAUUAAACAAUAAUAGCACCACACAAUAGC-
..........(((.((.((((.(((((((((.....((((....))))..)))).))))).....((((((((((....))))))))))...........)))).)).)))...- ( -23.10)
>consensus
CUUUAAUUAGAUCAUGCGGCGAUGAUAUAUACUUUACAUGAGCCCAUGGUUAUUUCAGCAAUAAAUAAUUGUUUAUUAUUAAACAAUUACACAAUAAUAGCACCACACAG_____
.........(((((((.(((..((............))...))))))))))..............((((((((((....)))))))))).......................... (-13.72 = -14.76 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:45 2006