Locus 1763

Sequence ID 3R_DroMel_CAF1
Location 5,082,898 – 5,082,995
Length 97
Max. P 0.994773
window2895 window2896

overview

Window 5

Location 5,082,898 – 5,082,995
Length 97
Sequences 3
Columns 97
Reading direction forward
Mean pairwise identity 95.88
Mean single sequence MFE -27.03
Consensus MFE -26.92
Energy contribution -27.37
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -3.86
Structure conservation index 1.00
SVM decision value 2.51
SVM RNA-class probability 0.994773
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5082898 97 + 27905053
GGGUUAACUUUCAUAGCUUUGGAAGAUUAAACGAUACACAUAUAGAUAUUUGCUGGUUUCAAAAUUAAACCGGAAAAUGCCUAUUUAUGUUUAUUCG
...((((((((((......)))))).)))).(((((.((((((((.(((((.(((((((.......))))))).))))).)))..))))).)).))) ( -20.70)
>DroSec_CAF1 9679 97 + 1
GGGUUAACUUUCAUAGCUUUGGAAGAUUAAAAGAUACAUAUAUAGGUAUUUACUGGUUUCAAAAUUAAGCCGGAAAAUGCCUAUUUAUGUUUAUUCG
...((((((((((......)))))).))))..((.(((((.((((((((((.(((((((.......))))))).)))))))))).)))))....)). ( -29.80)
>DroSim_CAF1 9780 97 + 1
GGGUUAACUUUCAUAGCUUUGGAAGAUUAAAAGAUACAUAUAUAGGUAUUUACUGGUUUUAAAAUUAAACCGGAAAAUGCCUAUUUAUGUUUAUUCG
...((((((((((......)))))).))))..((.(((((.((((((((((.(((((((.......))))))).)))))))))).)))))....)). ( -30.60)
>consensus
GGGUUAACUUUCAUAGCUUUGGAAGAUUAAAAGAUACAUAUAUAGGUAUUUACUGGUUUCAAAAUUAAACCGGAAAAUGCCUAUUUAUGUUUAUUCG
...((((((((((......)))))).))))..((.(((((.((((((((((.(((((((.......))))))).)))))))))).)))))....)). (-26.92 = -27.37 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 5,082,898 – 5,082,995
Length 97
Sequences 3
Columns 97
Reading direction reverse
Mean pairwise identity 95.88
Mean single sequence MFE -14.50
Consensus MFE -14.64
Energy contribution -14.53
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -1.29
Structure conservation index 1.01
SVM decision value 0.01
SVM RNA-class probability 0.539484
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5082898 97 - 27905053
CGAAUAAACAUAAAUAGGCAUUUUCCGGUUUAAUUUUGAAACCAGCAAAUAUCUAUAUGUGUAUCGUUUAAUCUUCCAAAGCUAUGAAAGUUAACCC
(((....(((((.((((..((((.(.(((((.......))))).).))))..)))).))))).))).((((..(((.........)))..))))... ( -15.00)
>DroSec_CAF1 9679 97 - 1
CGAAUAAACAUAAAUAGGCAUUUUCCGGCUUAAUUUUGAAACCAGUAAAUACCUAUAUAUGUAUCUUUUAAUCUUCCAAAGCUAUGAAAGUUAACCC
.......(((((.(((((.((((.(.((.((.......)).)).).)))).))))).))))).....((((..(((.........)))..))))... ( -12.20)
>DroSim_CAF1 9780 97 - 1
CGAAUAAACAUAAAUAGGCAUUUUCCGGUUUAAUUUUAAAACCAGUAAAUACCUAUAUAUGUAUCUUUUAAUCUUCCAAAGCUAUGAAAGUUAACCC
.......(((((.(((((.((((.(.(((((.......))))).).)))).))))).))))).....((((..(((.........)))..))))... ( -16.30)
>consensus
CGAAUAAACAUAAAUAGGCAUUUUCCGGUUUAAUUUUGAAACCAGUAAAUACCUAUAUAUGUAUCUUUUAAUCUUCCAAAGCUAUGAAAGUUAACCC
.......(((((.(((((.((((.(.(((((.......))))).).)))).))))).))))).....((((..(((.........)))..))))... (-14.64 = -14.53 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:43 2006