Locus 9071

Sequence ID 3R_DroMel_CAF1
Location 24,239,040 – 24,239,170
Length 130
Max. P 0.570971
window14524 window14525

overview

Window 4

Location 24,239,040 – 24,239,138
Length 98
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 78.11
Mean single sequence MFE -16.61
Consensus MFE -9.49
Energy contribution -10.49
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.56
Structure conservation index 0.57
SVM decision value -0.03
SVM RNA-class probability 0.517768
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24239040 98 - 27905053
CAAGCGGCUUUUACAAGCAGUAAAUUUAAGUUGCUGCUGCUCCUAGCUACUUCCUGUUUUCUUUU---UUUUU-------CCA---CCCAUUUCGGCCCUUUUAUCCUCCG--
.(((..(((......((((((((.......))))))))......)))..))).............---.....-------...---.........................-- ( -16.20)
>DroSec_CAF1 61688 98 - 1
CAAACGGCUUUUACAAGCAGUAAAUUUAAGUUGCUGCUGCUCCUUGCUACUUCCUGUUUUCUUUU---UUUUU-------CUA---CCGACUUCGGCCCUUUUAUCCUCCG--
.((((((........((((((((.......))))))))((.....))......))))))......---.....-------...---(((....)))...............-- ( -16.60)
>DroSim_CAF1 66186 101 - 1
CAAGCGGCUUUUACAAGCAGUAAAUUUAAGUUGCUGCUGCUCCUUGCUACUUCCUGUUUUCUUUUUUUUUUUU-------CUA---CCGACUUCGGCCCUUUUAUCCUCCG--
.(((..((.......((((((((.......)))))))).......))..))).....................-------...---(((....)))...............-- ( -17.74)
>DroEre_CAF1 66985 96 - 1
CAAGCGGCUUUUACAAGCAGUAAAUUUAAGUUGAUGCUGCUCCUUGCUACUUCCUGUUUUCUUU-----------CCCCCCCAC----CAUUUCGGCACUUUUAUCCUCCG--
.(((..((.......(((((((............)))))))....))..)))............-----------........(----(.....))...............-- ( -10.70)
>DroYak_CAF1 65208 108 - 1
CAAGCGGCUUUUACAAGCAGUAAAUUUAAGUUGCUGCUGCUCCUUGCUACUUCCUGUUUUCCUUU---UUUUCCACCCCCCCACCUCCCAUUUUGGCCCUUUUAUCCUCCG--
.(((.((((......((((((((.......))))))))((.....))..................---..........................)))))))..........-- ( -16.40)
>DroAna_CAF1 59745 93 - 1
CAAGCGGCUUUUACAAGCAGUAAAUUUAAGAUGAUUCUGCUUCG-GCUCCUGCUUUUGCUCCUAC---UCUUG----------------CCUGAGGAUCCUUCCGCUUCCCCC
.((((((.......((((((........(((....)))((....-))..))))))....((((.(---.....----------------...))))).....))))))..... ( -22.00)
>consensus
CAAGCGGCUUUUACAAGCAGUAAAUUUAAGUUGCUGCUGCUCCUUGCUACUUCCUGUUUUCUUUU___UUUUU_______CCA___CCCACUUCGGCCCUUUUAUCCUCCG__
.(((.(((.......((((((((.......)))))))).......))).)))............................................................. ( -9.49 = -10.49 +   1.00)

alignment

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secondary structure

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dotplot

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Window 5

Location 24,239,068 – 24,239,170
Length 102
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 79.40
Mean single sequence MFE -21.66
Consensus MFE -12.74
Energy contribution -12.02
Covariance contribution -0.72
Combinations/Pair 1.21
Mean z-score -1.63
Structure conservation index 0.59
SVM decision value 0.07
SVM RNA-class probability 0.570971
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24239068 102 - 27905053
-----CCGCCUUUUGUUUUUAUUUACCCACACCGGGGCAAGCGGCUUUUACAAGCAGUAAAUUUAAGUUGCUGCUGCUCCUAGCUACUUCCUGUUUUCUUUU---UUUUU------
-----..(((((.(((............)))..)))))(((..(((......((((((((.......))))))))......)))..))).............---.....------ ( -21.50)
>DroSim_CAF1 66214 105 - 1
-----CCGCCUUUUGUUUUUAUUUACCCACACCGGGGCAAGCGGCUUUUACAAGCAGUAAAUUUAAGUUGCUGCUGCUCCUUGCUACUUCCUGUUUUCUUUUUUUUUUUU------
-----....................(((.....)))(((((.(((.......((((((((.......))))))))))).)))))..........................------ ( -21.81)
>DroEre_CAF1 67013 100 - 1
-----CCGCCUUUUGUUUUUAUUUACCCACACCGGGGCAAGCGGCUUUUACAAGCAGUAAAUUUAAGUUGAUGCUGCUCCUUGCUACUUCCUGUUUUCUUU-----------CCCC
-----..(((.(((((.........(((.....)))))))).))).......(((((((............))))))).......................-----------.... ( -17.10)
>DroWil_CAF1 21675 102 - 1
GGCUGGUCUCUUUUGUUUUUAUUUGCCCACACCGGAGCUGGCGGCUUUUACAAGCAGUAAAUUUAAGUUGAUGCUGCUUCCGCACAGUUUCCGCUUCCCC--------AU------
(((.....................))).....((((((((((((.......((((((((............)))))))))))).))).))))).......--------..------ ( -25.71)
>DroYak_CAF1 65240 108 - 1
-----CCGCCUUUUGUUUUUAUUUACCCACACCGGGGCAAGCGGCUUUUACAAGCAGUAAAUUUAAGUUGCUGCUGCUCCUUGCUACUUCCUGUUUUCCUUU---UUUUCCACCCC
-----....................(((.....)))(((((.(((.......((((((((.......))))))))))).)))))..................---........... ( -21.81)
>DroAna_CAF1 59769 101 - 1
-----UCGUCUUUUGUUUUUAUUUACCCACACCGGAGCAAGCGGCUUUUACAAGCAGUAAAUUUAAGAUGAUUCUGCUUCG-GCUCCUGCUUUUGCUCCUAC---UCUUG------
-----............................(((((((((((.......((((((..((((......))))))))))..-....)))))..))))))...---.....------ ( -22.02)
>consensus
_____CCGCCUUUUGUUUUUAUUUACCCACACCGGGGCAAGCGGCUUUUACAAGCAGUAAAUUUAAGUUGAUGCUGCUCCUUGCUACUUCCUGUUUUCCUUU___UUUUU______
.................................(((((..((.((((....)))).)).......(((....)))))))).................................... (-12.74 = -12.02 +  -0.72)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:26:00 2006