Locus 4440

Sequence ID 2R_DroMel_CAF1
Location 14,598,124 – 14,598,218
Length 94
Max. P 0.652838
window7096 window7097

overview

Window 6

Location 14,598,124 – 14,598,218
Length 94
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 80.49
Mean single sequence MFE -18.68
Consensus MFE -12.93
Energy contribution -14.17
Covariance contribution 1.24
Combinations/Pair 1.20
Mean z-score -1.42
Structure conservation index 0.69
SVM decision value 0.25
SVM RNA-class probability 0.652838
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14598124 94 + 20766785
GCGAUUAUAUUUGCAAUUAUGCAAAGUAGCUGCUAGUUGGAUAAACAUAUAUAUAUAUG--------UAAAUAUAUUGUUGCUUUUUCCAUUUCGCA---UUGUU
((((.....((((((....))))))............((((.(((((...((((((...--------...))))))...)).))).))))..)))).---..... ( -18.20)
>DroSec_CAF1 230206 90 + 1
GCGAUUAUAUUUGCAAUUAUGCAAAGUAGCUGCUAGUUGGAUAAA----UAUAUAUAUG--------UAUAUAUAUUGUUGCUUUUUCCAUUUCGCG---UUGUU
((((.....((((((....))))))(((((..((....))...((----(((((((...--------.))))))))))))))..........)))).---..... ( -17.80)
>DroSim_CAF1 233540 90 + 1
GCGAUUAUAUUUGCAAUUAUGCAAAGUAACUGCUAGUUGGAUAAA----UAUAUAUAUG--------UAUAUAUAUUGUUGCUUUUUCCAUUUCGCG---UUGUU
((((.....((((((....))))))(((((..((....))...((----(((((((...--------.))))))))))))))..........)))).---..... ( -17.80)
>DroEre_CAF1 237671 101 + 1
GCGAUUAUAUUUGCAAUUAUGCAAAGUAGCUGCUAGUUGGAUGAA----UAUGUAUAUAUUCGUAUAUAUAUAUAUUGUUGCGUUUUCCAUUUCCCGCUGUUGUU
(((.((((.((((((....)))))))))).)))((((.(((..((----(((((((((((....)))))))))))))..((.(....)))..))).))))..... ( -22.20)
>DroYak_CAF1 245793 90 + 1
GCGAUUAUAUUUGCAAUUAUGCAAAGUAGCUGCUAGUUGGAUGAA----UAUAUAUACA--------UCUACAUAUUUAUGUAUAUUCCAUUUCGCG---UUGUU
(((.((((.((((((....)))))))))).)))..((..((((((----((((((((.(--------(......)).)))))))))).))))..)).---..... ( -19.50)
>DroAna_CAF1 271101 82 + 1
GCGAUUAUUUUUGCAAUUAUGCAAAGUAGCUGCUAGUUGGAUAUC----GUUGU---UG--------UAUAUAUUUUGGCCCGAUUGCC-----GGC---CUGAU
(((.(((((((.(((....)))))))))).)))..(((((..(((----(..((---((--------.........)))).))))..))-----)))---..... ( -16.60)
>consensus
GCGAUUAUAUUUGCAAUUAUGCAAAGUAGCUGCUAGUUGGAUAAA____UAUAUAUAUG________UAUAUAUAUUGUUGCUUUUUCCAUUUCGCG___UUGUU
(((.((((.((((((....)))))))))).)))....((((.(((.....((((((((((......))))))))))......))).))))............... (-12.93 = -14.17 +   1.24)

alignment

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secondary structure

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dotplot

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Window 7

Location 14,598,124 – 14,598,218
Length 94
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 80.49
Mean single sequence MFE -15.80
Consensus MFE -7.04
Energy contribution -9.65
Covariance contribution 2.61
Combinations/Pair 1.12
Mean z-score -2.48
Structure conservation index 0.45
SVM decision value 0.01
SVM RNA-class probability 0.540750
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14598124 94 - 20766785
AACAA---UGCGAAAUGGAAAAAGCAACAAUAUAUUUA--------CAUAUAUAUAUAUGUUUAUCCAACUAGCAGCUACUUUGCAUAAUUGCAAAUAUAAUCGC
.....---.((((..((((..(((((...((((((...--------...))))))...))))).))))............((((((....)))))).....)))) ( -17.80)
>DroSec_CAF1 230206 90 - 1
AACAA---CGCGAAAUGGAAAAAGCAACAAUAUAUAUA--------CAUAUAUAUA----UUUAUCCAACUAGCAGCUACUUUGCAUAAUUGCAAAUAUAAUCGC
.....---.((((..((((.........(((((((((.--------...)))))))----))..))))............((((((....)))))).....)))) ( -15.10)
>DroSim_CAF1 233540 90 - 1
AACAA---CGCGAAAUGGAAAAAGCAACAAUAUAUAUA--------CAUAUAUAUA----UUUAUCCAACUAGCAGUUACUUUGCAUAAUUGCAAAUAUAAUCGC
.....---.((((..((((.........(((((((((.--------...)))))))----))..))))....(((((((.......)))))))........)))) ( -15.80)
>DroEre_CAF1 237671 101 - 1
AACAACAGCGGGAAAUGGAAAACGCAACAAUAUAUAUAUAUACGAAUAUAUACAUA----UUCAUCCAACUAGCAGCUACUUUGCAUAAUUGCAAAUAUAAUCGC
.......((((....((((..........((((....))))..((((((....)))----))).))))............((((((....)))))).....)))) ( -15.40)
>DroYak_CAF1 245793 90 - 1
AACAA---CGCGAAAUGGAAUAUACAUAAAUAUGUAGA--------UGUAUAUAUA----UUCAUCCAACUAGCAGCUACUUUGCAUAAUUGCAAAUAUAAUCGC
.....---.((((..((((((((((((..........)--------)))))))...----....))))............((((((....)))))).....)))) ( -16.71)
>DroAna_CAF1 271101 82 - 1
AUCAG---GCC-----GGCAAUCGGGCCAAAAUAUAUA--------CA---ACAAC----GAUAUCCAACUAGCAGCUACUUUGCAUAAUUGCAAAAAUAAUCGC
....(---(((-----.(....).))))..........--------..---....(----(((.......(((...))).((((((....))))))....)))). ( -14.00)
>consensus
AACAA___CGCGAAAUGGAAAAAGCAACAAUAUAUAUA________CAUAUAUAUA____UUUAUCCAACUAGCAGCUACUUUGCAUAAUUGCAAAUAUAAUCGC
.........((((..((((.(((......((((((((..........)))))))).....))).))))............((((((....)))))).....)))) ( -7.04 =  -9.65 +   2.61)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:41 2006