Locus 6057

Sequence ID X_DroMel_CAF1
Location 15,547,648 – 15,547,738
Length 90
Max. P 0.932194
window9843 window9844

overview

Window 3

Location 15,547,648 – 15,547,738
Length 90
Sequences 4
Columns 92
Reading direction forward
Mean pairwise identity 88.18
Mean single sequence MFE -21.16
Consensus MFE -15.07
Energy contribution -17.32
Covariance contribution 2.25
Combinations/Pair 1.09
Mean z-score -2.11
Structure conservation index 0.71
SVM decision value 0.60
SVM RNA-class probability 0.793869
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15547648 90 + 22224390
AAAAAGAGACUGAGAAUAUU--CGAGGAAACGAGCGCGACGGAGAACCUUAAAAUCAGAAUUGAAACUCUCAAUCGACGCGUAGCAAACGCA
.......((.(((((...((--((((....)((.......((....))......))....)))))..))))).))...((((.....)))). ( -16.82)
>DroSec_CAF1 2621 92 + 1
AAAAAGAGACUGACCGUUUCCGCGAGGAAACGAACGCGGCGGAGAACCUUAAAAUAAGAAUUGAAACUCUCAAUCGAAGCGUAGCAAACGCA
..............(((((((....))))))).((((..((((((...((((........))))...))))...))..)))).((....)). ( -23.40)
>DroSim_CAF1 2629 92 + 1
AAAAAGAGACUGAGCGUUUCCGCGAGGAAACGAACGCGGCGGAGAACCUUAAAAUAAGAAUUGAAACUCUCAAUCGAAGCGUAGCAAACGCA
.......((.((((.(((((((((.(....)...))))..((....))..............))))).)))).))...((((.....)))). ( -24.90)
>DroEre_CAF1 4451 90 + 1
AAAACGAGACUGAGAAUGUU--CAAGAGAACGAGCGCGACGGAGAACCCAAAAAUUAGAAUUGAAAUUCUCAAUCGAAGCGUAGCAAACGCA
....(((...(((((((.((--(((.....((....))..((.....))...........)))))))))))).)))..((((.....)))). ( -19.50)
>consensus
AAAAAGAGACUGAGAAUUUC__CGAGGAAACGAACGCGACGGAGAACCUUAAAAUAAGAAUUGAAACUCUCAAUCGAAGCGUAGCAAACGCA
.......((.((((((((((((((.(....)...))))..((....))..............)))))))))).))...((((.....)))). (-15.07 = -17.32 +   2.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 15,547,648 – 15,547,738
Length 90
Sequences 4
Columns 92
Reading direction reverse
Mean pairwise identity 88.18
Mean single sequence MFE -23.28
Consensus MFE -18.00
Energy contribution -19.12
Covariance contribution 1.12
Combinations/Pair 1.17
Mean z-score -2.37
Structure conservation index 0.77
SVM decision value 1.22
SVM RNA-class probability 0.932194
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15547648 90 - 22224390
UGCGUUUGCUACGCGUCGAUUGAGAGUUUCAAUUCUGAUUUUAAGGUUCUCCGUCGCGCUCGUUUCCUCG--AAUAUUCUCAGUCUCUUUUU
.((((.....))))...(((((((((((((..............((....))(..((....))..)...)--)).))))))))))....... ( -19.60)
>DroSec_CAF1 2621 92 - 1
UGCGUUUGCUACGCUUCGAUUGAGAGUUUCAAUUCUUAUUUUAAGGUUCUCCGCCGCGUUCGUUUCCUCGCGGAAACGGUCAGUCUCUUUUU
.((((.....))))...((((((..(((((..............((....))..((((..........)))))))))..))))))....... ( -23.90)
>DroSim_CAF1 2629 92 - 1
UGCGUUUGCUACGCUUCGAUUGAGAGUUUCAAUUCUUAUUUUAAGGUUCUCCGCCGCGUUCGUUUCCUCGCGGAAACGCUCAGUCUCUUUUU
.((((.....))))...(((((((.(((((..............((....))..((((..........))))))))).)))))))....... ( -26.40)
>DroEre_CAF1 4451 90 - 1
UGCGUUUGCUACGCUUCGAUUGAGAAUUUCAAUUCUAAUUUUUGGGUUCUCCGUCGCGCUCGUUCUCUUG--AACAUUCUCAGUCUCGUUUU
.((((.....))))...((((((((((................((((.(......).))))((((....)--)))))))))))))....... ( -23.20)
>consensus
UGCGUUUGCUACGCUUCGAUUGAGAGUUUCAAUUCUUAUUUUAAGGUUCUCCGCCGCGCUCGUUUCCUCG__AAAACGCUCAGUCUCUUUUU
.((((.....))))...((((((((((((...............((....)).(((((..........)))))))))))))))))....... (-18.00 = -19.12 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:07 2006