Locus 10189

Sequence ID 3R_DroMel_CAF1
Location 27,326,945 – 27,327,039
Length 94
Max. P 0.889667
window16223 window16224

overview

Window 3

Location 27,326,945 – 27,327,039
Length 94
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 85.72
Mean single sequence MFE -34.17
Consensus MFE -26.02
Energy contribution -26.35
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -3.41
Structure conservation index 0.76
SVM decision value 0.96
SVM RNA-class probability 0.889667
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27326945 94 + 27905053
------AUCUGCGUAUUAGUUUAUUGGCCCACUAAGGCAACUGACCCACAACUUUAAAUUG--UGAUUUGAGUGGGCCAGUAGCUAAGUAGUUG-ACUAGCUG-------------
------.((.((...((((((.(((((((((((.((....))....(((((.......)))--)).....)))))))))))))))))...)).)-).......------------- ( -33.10)
>DroSec_CAF1 32308 94 + 1
------AUCUGCGUAUUAGUUUAUUGCCCCACUAAGGCAACUGACCCACAACUUUAAAUUG--UGAUUUGAGUGGGCCAGUAGCUAAGUAGUUG-ACUAGCUA-------------
------.((.((...((((((.((((.((((((.((....))....(((((.......)))--)).....)))))).))))))))))...)).)-).......------------- ( -26.00)
>DroSim_CAF1 30217 94 + 1
------AUCUGCGUAUUAGUUUAUUGGCCCACUAAGGCAACUGACCCACAACUUUAAAUUG--UGAUUUGAGUGGGCCAGUAGCUAAGUAGUUG-ACUAGCUG-------------
------.((.((...((((((.(((((((((((.((....))....(((((.......)))--)).....)))))))))))))))))...)).)-).......------------- ( -33.10)
>DroEre_CAF1 36738 94 + 1
------UUCUGCGUAUUAGUUUAUUGGCCCACUAAGGCAACUGACCCACAACAUUAAAUUG--UGAUUUGAGUGGGCCAGUAGCUAAGUAGUUG-ACAAGCUG-------------
------.((.((...((((((.(((((((((((.((....))....(((((.......)))--)).....)))))))))))))))))...)).)-).......------------- ( -33.00)
>DroYak_CAF1 28942 94 + 1
------AUCAGCGUAUUAGUUUAUUGGCCCACUAAGGCAGCUGACCCACAGCAUUAAAUUG--UGAUUUGAGUGGGCCAGUAGCUAAGCAGUUG-ACUAGCUG-------------
------.(((((...((((((.((((((((((.......((((.....)))).((((((..--..))))))))))))))))))))))...))))-).......------------- ( -36.50)
>DroAna_CAF1 36927 114 + 1
GCGGCAGACUGCGGAUUAGUUUAUUGGCCCACUAAGGCGGCUGACCCACAACAUUAAAUUGUGUGAUUUGAGUGGGCCAGUAGCCAA--AGUCGGGCCAGCAAGGCACAACAAGGC
((.((((((((.....))))))..(((((((((..(((.((((.(((((....(((((((....)))))))))))).)))).)))..--))).))))))))...)).......... ( -43.30)
>consensus
______AUCUGCGUAUUAGUUUAUUGGCCCACUAAGGCAACUGACCCACAACAUUAAAUUG__UGAUUUGAGUGGGCCAGUAGCUAAGUAGUUG_ACUAGCUG_____________
..........((...((((((.((((((((((..((....))...........(((((((....)))))))))))))))))))))))...))........................ (-26.02 = -26.35 +   0.33)

alignment

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secondary structure

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dotplot

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Window 4

Location 27,326,945 – 27,327,039
Length 94
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 85.72
Mean single sequence MFE -29.68
Consensus MFE -22.81
Energy contribution -23.37
Covariance contribution 0.56
Combinations/Pair 1.06
Mean z-score -2.98
Structure conservation index 0.77
SVM decision value 0.72
SVM RNA-class probability 0.833809
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27326945 94 - 27905053
-------------CAGCUAGU-CAACUACUUAGCUACUGGCCCACUCAAAUCA--CAAUUUAAAGUUGUGGGUCAGUUGCCUUAGUGGGCCAAUAAACUAAUACGCAGAU------
-------------.((((((.-.......))))))..(((((((((.....((--((((.....))))))(((.....)))..)))))))))..................------ ( -28.60)
>DroSec_CAF1 32308 94 - 1
-------------UAGCUAGU-CAACUACUUAGCUACUGGCCCACUCAAAUCA--CAAUUUAAAGUUGUGGGUCAGUUGCCUUAGUGGGGCAAUAAACUAAUACGCAGAU------
-------------(((((((.-.......)))))))(((((((((........--............)))))))))((((((.....)))))).................------ ( -27.55)
>DroSim_CAF1 30217 94 - 1
-------------CAGCUAGU-CAACUACUUAGCUACUGGCCCACUCAAAUCA--CAAUUUAAAGUUGUGGGUCAGUUGCCUUAGUGGGCCAAUAAACUAAUACGCAGAU------
-------------.((((((.-.......))))))..(((((((((.....((--((((.....))))))(((.....)))..)))))))))..................------ ( -28.60)
>DroEre_CAF1 36738 94 - 1
-------------CAGCUUGU-CAACUACUUAGCUACUGGCCCACUCAAAUCA--CAAUUUAAUGUUGUGGGUCAGUUGCCUUAGUGGGCCAAUAAACUAAUACGCAGAA------
-------------.((((.((-.....))..))))..(((((((((.....((--((((.....))))))(((.....)))..)))))))))..................------ ( -26.80)
>DroYak_CAF1 28942 94 - 1
-------------CAGCUAGU-CAACUGCUUAGCUACUGGCCCACUCAAAUCA--CAAUUUAAUGCUGUGGGUCAGCUGCCUUAGUGGGCCAAUAAACUAAUACGCUGAU------
-------------((((((((-...(..((..((..(((((((((........--............)))))))))..))...))..)........))))....))))..------ ( -26.65)
>DroAna_CAF1 36927 114 - 1
GCCUUGUUGUGCCUUGCUGGCCCGACU--UUGGCUACUGGCCCACUCAAAUCACACAAUUUAAUGUUGUGGGUCAGCCGCCUUAGUGGGCCAAUAAACUAAUCCGCAGUCUGCCGC
(((..((((.(((.....))).)))).--..)))...(((((((((.......((((((.....))))))((....)).....)))))))))............((.....))... ( -39.90)
>consensus
_____________CAGCUAGU_CAACUACUUAGCUACUGGCCCACUCAAAUCA__CAAUUUAAAGUUGUGGGUCAGUUGCCUUAGUGGGCCAAUAAACUAAUACGCAGAU______
.........................(((((..((.((((((((((......................)))))))))).))...)))))............................ (-22.81 = -23.37 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:50:59 2006