Locus 245

Sequence ID 2R_DroMel_CAF1
Location 1,630,097 – 1,630,217
Length 120
Max. P 0.544352
window525 window526

overview

Window 5

Location 1,630,097 – 1,630,217
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 67.52
Mean single sequence MFE -24.70
Consensus MFE -13.56
Energy contribution -16.88
Covariance contribution 3.31
Combinations/Pair 1.17
Mean z-score -1.35
Structure conservation index 0.55
SVM decision value -0.02
SVM RNA-class probability 0.523035
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1630097 120 + 20766785
UUCAAGAAACUGAGCGAUAUAGAAUUUUACAAGGUCAUUAUUUUAAGAAAUAGGUAUAUGGUGAGGAUACGAGCUUAAGGAAACCCAUUUCGUACAACGACUUUGCGAAGCACAAAUAAU
((((......))))..........(((..(((((((.((((((....))))))((((((((((((........)))).(....)))))...))))...)))))))..))).......... ( -17.60)
>DroSec_CAF1 15933 105 + 1
---------------GGUUUUGUAUUUUGCAAGGUCAUUAUUUUAGGAAAUGGGUAUGUUGUGAGGCUACGAACUUGAGGAAACCCAUUUCGUACAACGACUUUACGAAGCACAAAAAAU
---------------..((((((.(((((.((((((....((.((.(((((((((...((.(.(((.......))).).)).))))))))).)).)).)))))).))))).))))))... ( -27.80)
>DroSim_CAF1 14370 105 + 1
---------------GGGUUUGGAUUUCGCAAGGUCAUUAUUUUAGGAAAUGGGUAUGUUGUGAGGAUACGAACUUGAGGGAACCCAUUUCGCACACCGACUUUGCGAAGCACAAAAAAU
---------------...((((..((((((((((((..........(((((((((.(.(..((((........))))..).))))))))))(.....)))))))))))))..)))).... ( -33.80)
>DroEre_CAF1 18441 91 + 1
UUCAGGAAACUGGCCAUAAUAGGAUUCUGUAAGGUCACUAUUUUAGGAAAUGGAUAUGUUGUGAGGAUAC----------------------------GACUUUACGAAGCACGAAAAA-
.((((....))))((......)).(((.((((((((.((((((....)))))).......(((....)))----------------------------)))))))))))..........- ( -19.60)
>consensus
_______________GGUAUAGGAUUUUGCAAGGUCAUUAUUUUAGGAAAUGGGUAUGUUGUGAGGAUACGAACUUGAGGAAACCCAUUUCGUACAACGACUUUACGAAGCACAAAAAAU
.....................(..((((((((((((.(((...)))(((((((((......((((........)))).....))))))))).......))))))))))))..)....... (-13.56 = -16.88 +   3.31)

alignment

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secondary structure

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dotplot

Postscript

Window 6

Location 1,630,097 – 1,630,217
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 67.52
Mean single sequence MFE -19.13
Consensus MFE -11.51
Energy contribution -14.50
Covariance contribution 3.00
Combinations/Pair 1.19
Mean z-score -1.20
Structure conservation index 0.60
SVM decision value 0.02
SVM RNA-class probability 0.544352
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1630097 120 - 20766785
AUUAUUUGUGCUUCGCAAAGUCGUUGUACGAAAUGGGUUUCCUUAAGCUCGUAUCCUCACCAUAUACCUAUUUCUUAAAAUAAUGACCUUGUAAAAUUCUAUAUCGCUCAGUUUCUUGAA
.....(((.((((..(((.((((((((..(((((((((...........................))))))))).....)))))))).)))..))..........)).)))......... ( -19.03)
>DroSec_CAF1 15933 105 - 1
AUUUUUUGUGCUUCGUAAAGUCGUUGUACGAAAUGGGUUUCCUCAAGUUCGUAGCCUCACAACAUACCCAUUUCCUAAAAUAAUGACCUUGCAAAAUACAAAACC---------------
...(((((((.((.((((.((((((((..(((((((((........((.....))..........))))))))).....)))))))).)))).)).)))))))..--------------- ( -25.47)
>DroSim_CAF1 14370 105 - 1
AUUUUUUGUGCUUCGCAAAGUCGGUGUGCGAAAUGGGUUCCCUCAAGUUCGUAUCCUCACAACAUACCCAUUUCCUAAAAUAAUGACCUUGCGAAAUCCAAACCC---------------
....((((...(((((((.((((.(((..(((((((((.......((........))........))))))))).....))).)))).)))))))...))))...--------------- ( -25.36)
>DroEre_CAF1 18441 91 - 1
-UUUUUCGUGCUUCGUAAAGUC----------------------------GUAUCCUCACAACAUAUCCAUUUCCUAAAAUAGUGACCUUACAGAAUCCUAUUAUGGCCAGUUUCCUGAA
-........(((..(((...((----------------------------(((...((((......................))))...))).))....)))...)))(((....))).. (  -6.65)
>consensus
AUUUUUUGUGCUUCGCAAAGUCGUUGUACGAAAUGGGUUUCCUCAAGUUCGUAUCCUCACAACAUACCCAUUUCCUAAAAUAAUGACCUUGCAAAAUCCAAAACC_______________
..............((((.((((((((..(((((((((...........................))))))))).....)))))))).))))............................ (-11.51 = -14.50 +   3.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:23 2006