Locus 3883

Sequence ID 3L_DroMel_CAF1
Location 11,246,918 – 11,247,027
Length 109
Max. P 0.751796
window6041 window6042

overview

Window 1

Location 11,246,918 – 11,247,027
Length 109
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 87.92
Mean single sequence MFE -27.45
Consensus MFE -19.99
Energy contribution -20.30
Covariance contribution 0.31
Combinations/Pair 1.05
Mean z-score -1.89
Structure conservation index 0.73
SVM decision value 0.48
SVM RNA-class probability 0.751796
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11246918 109 + 23771897
AUAAGAUGCUAAUGUUUUGACCAUAGCUGUGCAGACUUUAAAAUAGAACGCACUUAAAUUGAGUGCGAAUUGUUAGAGGCACUCUAACAGCCGGCAAACCUAUUUUCAA
.((((((......))))))......((((.((................(((((((.....)))))))...((((((((...)))))))))))))).............. ( -28.00)
>DroSec_CAF1 48827 109 + 1
AUUCGAUUCUAAUGUUUUGGCCAUAGCUGUGCAGACUUUAAAAUAGAACGCACUUAAAUUGAGUGCGAAUUGUUAGAGGCACUUCUACUGCCGGUAAACCUAUUUUCGA
..((((............(((..(((..((((...((((((.......(((((((.....))))))).....))))))))))..)))..)))((....)).....)))) ( -29.20)
>DroSim_CAF1 50492 109 + 1
AUACGAUUCUAAGUUCUUGACCAUAGCUGUGCAGACUUUAAAAUAGAACGCACUUAAAUUGAGUGCGAAUUGUUAGAGGCACUCUAACUGCCGGCAAACCUAUUUUCGA
...(((......(((...)))....((((.((((..............(((((((.....))))))).....((((((...))))))))))))))..........))). ( -26.60)
>DroYak_CAF1 51848 107 + 1
GUAAGAUGCUAAUUUUUCAGCCAUUGCUGUGCAGACUUUAAAAUAGAACGCACUUAAGUUGAGUGCGAAUUGU-AGAG-CUCCAUUUCUGCCGGCAAACCAAUUUUCGA
(.((((((((........)))..((((((.((((((((((.(((....(((((((.....))))))).))).)-))))-.......)))))))))))....)))))).. ( -26.01)
>consensus
AUAAGAUGCUAAUGUUUUGACCAUAGCUGUGCAGACUUUAAAAUAGAACGCACUUAAAUUGAGUGCGAAUUGUUAGAGGCACUCUAACUGCCGGCAAACCUAUUUUCGA
.........................((((.((((.((((((.......(((((((.....))))))).....)))))).........)))))))).............. (-19.99 = -20.30 +   0.31)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 11,246,918 – 11,247,027
Length 109
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 87.92
Mean single sequence MFE -28.00
Consensus MFE -18.86
Energy contribution -20.30
Covariance contribution 1.44
Combinations/Pair 1.18
Mean z-score -2.21
Structure conservation index 0.67
SVM decision value 0.44
SVM RNA-class probability 0.737876
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11246918 109 - 23771897
UUGAAAAUAGGUUUGCCGGCUGUUAGAGUGCCUCUAACAAUUCGCACUCAAUUUAAGUGCGUUCUAUUUUAAAGUCUGCACAGCUAUGGUCAAAACAUUAGCAUCUUAU
((((..((((.(.(((.(((((((((((...)))))))....((((((.......))))))...........)))).))).).))))..))))................ ( -30.30)
>DroSec_CAF1 48827 109 - 1
UCGAAAAUAGGUUUACCGGCAGUAGAAGUGCCUCUAACAAUUCGCACUCAAUUUAAGUGCGUUCUAUUUUAAAGUCUGCACAGCUAUGGCCAAAACAUUAGAAUCGAAU
((((.....((....))(((.((((..((((((.(((.(((.((((((.......))))))....)))))).))...))))..)))).)))............)))).. ( -27.10)
>DroSim_CAF1 50492 109 - 1
UCGAAAAUAGGUUUGCCGGCAGUUAGAGUGCCUCUAACAAUUCGCACUCAAUUUAAGUGCGUUCUAUUUUAAAGUCUGCACAGCUAUGGUCAAGAACUUAGAAUCGUAU
.(((...(((((((((((..((((.((((((............)))))).......(((((..((.......))..))))))))).))))...)))))))...)))... ( -28.80)
>DroYak_CAF1 51848 107 - 1
UCGAAAAUUGGUUUGCCGGCAGAAAUGGAG-CUCU-ACAAUUCGCACUCAACUUAAGUGCGUUCUAUUUUAAAGUCUGCACAGCAAUGGCUGAAAAAUUAGCAUCUUAC
......((((.(.(((.(((.(((((((((-(...-.......(((((.......)))))))))))))))...))).))).).)))).(((((....)))))....... ( -25.80)
>consensus
UCGAAAAUAGGUUUGCCGGCAGUAAGAGUGCCUCUAACAAUUCGCACUCAAUUUAAGUGCGUUCUAUUUUAAAGUCUGCACAGCUAUGGCCAAAAAAUUAGAAUCGUAU
((((..((((.(.(((.(((.(((((((...)))))))....((((((.......))))))............))).))).).))))..))))................ (-18.86 = -20.30 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:04 2006