Locus 5808

Sequence ID 3L_DroMel_CAF1
Location 15,718,949 – 15,719,041
Length 92
Max. P 0.979109
window9228 window9229

overview

Window 8

Location 15,718,949 – 15,719,041
Length 92
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 90.87
Mean single sequence MFE -22.96
Consensus MFE -17.76
Energy contribution -18.20
Covariance contribution 0.44
Combinations/Pair 1.13
Mean z-score -2.67
Structure conservation index 0.77
SVM decision value 1.83
SVM RNA-class probability 0.979109
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15718949 92 + 23771897
CACCUCUAAUUUUGCCAGCUAUUUAUCAUUUCGUUUCUUUGUGUAGCUUGAAGAAUAGGGGCUUUCGAUCUGUUUCUGGAUCUGCUUUUUGC
..((((((.((((.(.((((((....((...........)).)))))).))))).)))))).....(((((......))))).......... ( -18.90)
>DroSec_CAF1 34368 92 + 1
CACCUCAAAUUCUUCCAGCUAUUUAUCAUUUUGUUUCUUUGUGUAGCUUGAAGAAUAGGGGCUUUCGAUCUGUUUCUGGAUCUGCUUUUUGC
..((((..(((((((.((((((....((...........)).)))))).))))))).)))).....(((((......))))).......... ( -22.40)
>DroSim_CAF1 35451 92 + 1
CACCUCAAAUUCUUCCAGCUAUUUAUCAUUUUGUUUCUUUGUGUAGCUUGAAGAAUAGGGGCAUUCGAUCUGUUUCUGGAUCUGCUUUUUGC
..(((...(((((((.((((((....((...........)).)))))).))))))))))((((...(((((......)))))))))...... ( -23.20)
>DroEre_CAF1 25654 91 + 1
CACCUUGUAUUCUUGCAGCUAUUUAUCAUUUUGUACUUUUGUGUAGCUGGAAGAACAG-GGCUUUCGAUCUGUUUCUGGAUCUGCUUUUUGC
..((((((..((((.(((((((....((...........)).))))))).))))))))-)).....(((((......))))).......... ( -25.00)
>DroYak_CAF1 71481 92 + 1
CACCUCUAAGUCUAGCAGCUAUUUAUCAUUUUGUCUCUUUGUGUAGCUGCAAGAACAGGGGCUUUCGAUCUGUUUCUGGAUCUGCUUUUUGU
..(((((...(((.((((((((....((...........)).)))))))).)))..))))).....(((((......))))).......... ( -25.30)
>consensus
CACCUCAAAUUCUUCCAGCUAUUUAUCAUUUUGUUUCUUUGUGUAGCUUGAAGAAUAGGGGCUUUCGAUCUGUUUCUGGAUCUGCUUUUUGC
..((((...((((((.((((((....((...........)).)))))).))))))..)))).....(((((......))))).......... (-17.76 = -18.20 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 15,718,949 – 15,719,041
Length 92
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 90.87
Mean single sequence MFE -17.81
Consensus MFE -13.31
Energy contribution -13.83
Covariance contribution 0.52
Combinations/Pair 1.11
Mean z-score -1.91
Structure conservation index 0.75
SVM decision value 0.42
SVM RNA-class probability 0.730939
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15718949 92 - 23771897
GCAAAAAGCAGAUCCAGAAACAGAUCGAAAGCCCCUAUUCUUCAAGCUACACAAAGAAACGAAAUGAUAAAUAGCUGGCAAAAUUAGAGGUG
((.....)).((((........))))....(((.(((((..(((....................)))..)))))..)))............. ( -12.35)
>DroSec_CAF1 34368 92 - 1
GCAAAAAGCAGAUCCAGAAACAGAUCGAAAGCCCCUAUUCUUCAAGCUACACAAAGAAACAAAAUGAUAAAUAGCUGGAAGAAUUUGAGGUG
((.....)).((((........))))....((((..(((((((.(((((......................))))).)))))))..).))). ( -19.15)
>DroSim_CAF1 35451 92 - 1
GCAAAAAGCAGAUCCAGAAACAGAUCGAAUGCCCCUAUUCUUCAAGCUACACAAAGAAACAAAAUGAUAAAUAGCUGGAAGAAUUUGAGGUG
((.....)).((((........))))....((((..(((((((.(((((......................))))).)))))))..).))). ( -19.05)
>DroEre_CAF1 25654 91 - 1
GCAAAAAGCAGAUCCAGAAACAGAUCGAAAGCC-CUGUUCUUCCAGCUACACAAAAGUACAAAAUGAUAAAUAGCUGCAAGAAUACAAGGUG
((.....)).((((........))))....(((-.(((((((.((((((......................)))))).)))))))...))). ( -18.45)
>DroYak_CAF1 71481 92 - 1
ACAAAAAGCAGAUCCAGAAACAGAUCGAAAGCCCCUGUUCUUGCAGCUACACAAAGAGACAAAAUGAUAAAUAGCUGCUAGACUUAGAGGUG
..........((((........))))....(((.(((.(((.(((((((......................))))))).)))..))).))). ( -20.05)
>consensus
GCAAAAAGCAGAUCCAGAAACAGAUCGAAAGCCCCUAUUCUUCAAGCUACACAAAGAAACAAAAUGAUAAAUAGCUGGAAGAAUUAGAGGUG
..........((((........))))....(((...(((((((.(((((......................))))).)))))))....))). (-13.31 = -13.83 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:28 2006