Locus 2686

Sequence ID 3R_DroMel_CAF1
Location 7,220,990 – 7,221,119
Length 129
Max. P 0.989612
window4359 window4360

overview

Window 9

Location 7,220,990 – 7,221,091
Length 101
Sequences 5
Columns 102
Reading direction forward
Mean pairwise identity 91.62
Mean single sequence MFE -20.40
Consensus MFE -15.77
Energy contribution -17.02
Covariance contribution 1.25
Combinations/Pair 1.00
Mean z-score -3.07
Structure conservation index 0.77
SVM decision value 2.17
SVM RNA-class probability 0.989612
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7220990 101 + 27905053
ACAUUUAUACUA-ACAUAAACAUACAUACUUAAACUUAAGUCAACAAAUCAAAGGGGCGGACCACAAAAGGGUCCGUCUCGAACGAUAAUUGGUUAAUAAAA
...(((((..((-((............(((((....)))))...((((((...((((((((((.......))))))))))....)))..)))))))))))). ( -23.10)
>DroSec_CAF1 52866 101 + 1
ACAUUUAUACUA-ACAUAAACAUACAUACUUAAACUUAAGUCAACAAAUCAAAGGGGCGGACCAGCAAAGGGUCCGUCUCGAACGAUAAUUGGUUAAUAAAA
...(((((..((-((............(((((....)))))...((((((...((((((((((.......))))))))))....)))..)))))))))))). ( -23.10)
>DroSim_CAF1 49535 101 + 1
ACAUUUAUACUA-ACAUAAACAUACAUACUUAAACUUAAGUCAACAAAUCAAAGGGGCGGACCAGCAAAGGGUCCGUCUCGAACGAUAAUUGGUUAAUAAAA
...(((((..((-((............(((((....)))))...((((((...((((((((((.......))))))))))....)))..)))))))))))). ( -23.10)
>DroEre_CAF1 57972 101 + 1
ACAUUUAUACUU-ACAUAAACAUACAUACUUAAACUUAAGUCAACAAAUCAAAGGGGCGGACCACCAAAGGGUCCGUCUCGAACGAUAAUUGGUUAAUAAAA
.((.((((....-..............(((((....)))))............((((((((((.......)))))))))).....)))).)).......... ( -21.60)
>DroAna_CAF1 51964 90 + 1
ACAUUUAUACUAAACAUAAACAUACAUACUUAAACUUAAGUCAACAAGUCUAGAGG-C-AACCAG----------GUCUCGAACGAUAAUUGGUUAAUAAAA
...((((((((((..............(((((....)))))......(((..((((-(-......----------)))))....)))..)))))..))))). ( -11.10)
>consensus
ACAUUUAUACUA_ACAUAAACAUACAUACUUAAACUUAAGUCAACAAAUCAAAGGGGCGGACCAGCAAAGGGUCCGUCUCGAACGAUAAUUGGUUAAUAAAA
.((.((((...................(((((....)))))............((((((((((.......)))))))))).....)))).)).......... (-15.77 = -17.02 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 7,221,014 – 7,221,119
Length 105
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 81.94
Mean single sequence MFE -18.08
Consensus MFE -11.68
Energy contribution -14.17
Covariance contribution 2.49
Combinations/Pair 1.04
Mean z-score -2.35
Structure conservation index 0.65
SVM decision value 0.59
SVM RNA-class probability 0.793261
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7221014 105 + 27905053
AUACUUAAACUUAAGUCAACAAAUCAAAGGGGCGGACCACAAAAGGGUCCGUCUCGAACGAUAAUUGGUUAAUAAAAGCGAAAUUAAUUGAAAA-------AACAGAAAACA
..(((((....)))))......(((...((((((((((.......))))))))))....)))..(..((((((.........))))))..)...-------........... ( -23.30)
>DroPse_CAF1 87821 80 + 1
AUACUUAAACUUAAGUCAA---GUCAAAAAAACG---------------------AGACGAUAAUUGGUUAAUAAAAGCGAAAUUCAUUGAGAA-------AACAGAAAAC-
.........((((((((..---((.......)).---------------------.)))((...((.(((......))).))..)).)))))..-------..........- (  -7.10)
>DroSec_CAF1 52890 105 + 1
AUACUUAAACUUAAGUCAACAAAUCAAAGGGGCGGACCAGCAAAGGGUCCGUCUCGAACGAUAAUUGGUUAAUAAAAGCGAAAUUAAUUGAGAA-------AACAGAAAACA
..(((((....)))))......(((...((((((((((.......))))))))))....)))..(..((((((.........))))))..)...-------........... ( -23.30)
>DroSim_CAF1 49559 105 + 1
AUACUUAAACUUAAGUCAACAAAUCAAAGGGGCGGACCAGCAAAGGGUCCGUCUCGAACGAUAAUUGGUUAAUAAAAGCGAAAUUAAUUGAGAA-------AACAGAAAACA
..(((((....)))))......(((...((((((((((.......))))))))))....)))..(..((((((.........))))))..)...-------........... ( -23.30)
>DroYak_CAF1 58333 105 + 1
AUACUUAAACUUAAGUCAACAAAUCAAAGGGGCGGACCACCAAAGGGUCCGUCACGAACGAUAAUUGGUUAAUAAAAGCGAAAUUAAUUGAGAA-------AACAGAAAACA
..(((((....)))))......(((...(.((((((((.......)))))))).)....)))..(..((((((.........))))))..)...-------........... ( -19.30)
>DroAna_CAF1 51989 100 + 1
AUACUUAAACUUAAGUCAACAAGUCUAGAGG-C-AACCAG----------GUCUCGAACGAUAAUUGGUUAAUAAAAGCGAAAUUUAUUGAAAAAAAAAAAAAAAGAAAACA
..(((((....))))).......(((.((((-(-......----------)))))...((((((((.(((......))).))..))))))..............)))..... ( -12.20)
>consensus
AUACUUAAACUUAAGUCAACAAAUCAAAGGGGCGGACCAGCAAAGGGUCCGUCUCGAACGAUAAUUGGUUAAUAAAAGCGAAAUUAAUUGAGAA_______AACAGAAAACA
..(((((....)))))......(((...((((((((((.......))))))))))....)))..(..((((((.........))))))..)..................... (-11.68 = -14.17 +   2.49)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:13 2006