Locus 8047

Sequence ID X_DroMel_CAF1
Location 20,047,020 – 20,047,211
Length 191
Max. P 0.988167
window13204 window13205 window13206

overview

Window 4

Location 20,047,020 – 20,047,138
Length 118
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 78.32
Mean single sequence MFE -31.10
Consensus MFE -19.89
Energy contribution -22.07
Covariance contribution 2.19
Combinations/Pair 1.33
Mean z-score -2.49
Structure conservation index 0.64
SVM decision value 2.11
SVM RNA-class probability 0.988167
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20047020 118 + 22224390
UCUUAGCGGGAUUCCGAAUUCUUAAUUAACACAAGUUUAAACACAAGAAUAAGAUUUUACUACUGUACGGCGAUAGCUGUGAACAGCUGUCGUGACAGCGAUAGUUCCAGUCUUUCCA
........(((......((((((....(((....))).......))))))((((((..((((((((...((((((((((....)))))))))).))))...))))...))))))))). ( -31.90)
>DroSim_CAF1 3789 118 + 1
CCCUAGCGGAAUUCCCAAUUCUCAAUUAACACAGGUUUAAACACAAGAAUAAGCUUUUACUGCUGUACGACGAUAGUUGUGAACAGCUGUCGUGACAGCGAUAGUUCCACUACUCCCA
...(((.((((((..(................(((((((..........))))))).....(((((...((((((((((....)))))))))).))))))..)))))).)))...... ( -33.10)
>DroEre_CAF1 1519 111 + 1
CUUUAGCGGAAU-------ACCUAAUUUACACAGGUUUAGGCACACGAAUAAGCUUUUAUUGUUGUACAGCGUUAGCUGAGAACAGCUGUCGUGACUGCGAUAGUUACCCUACUCUCG
.....((((...-------.(((((...........)))))..(((((...((((......(((.(.((((....))))).))))))).))))).))))((.(((......))).)). ( -29.00)
>DroYak_CAF1 2508 111 + 1
CUUUAGCGGAAU-------UCUUAAUUAUUACAGUGUUAAACACAAGAAUUAGUUAUUAAUACUCUAUGACGAUAGCUGUGAACAGCUGUCGUGACAGCGAUAGUUCCACUGCUCCCA
...(((.(((((-------(.((.........((((((((..((........))..))))))))((.(.((((((((((....)))))))))).).)).)).)))))).)))...... ( -30.40)
>consensus
CCUUAGCGGAAU_______UCUUAAUUAACACAGGUUUAAACACAAGAAUAAGCUUUUACUACUGUACGACGAUAGCUGUGAACAGCUGUCGUGACAGCGAUAGUUCCACUACUCCCA
...(((.(((((.....................(((..((((..........))))..)))(((((...((((((((((....)))))))))).)))))....))))).)))...... (-19.89 = -22.07 +   2.19)

alignment

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secondary structure

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dotplot

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Window 5

Location 20,047,059 – 20,047,178
Length 119
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 83.75
Mean single sequence MFE -38.05
Consensus MFE -24.61
Energy contribution -27.43
Covariance contribution 2.81
Combinations/Pair 1.12
Mean z-score -1.93
Structure conservation index 0.65
SVM decision value 0.40
SVM RNA-class probability 0.720465
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20047059 119 + 22224390
AACACAAGAAUAAGAUUUUACUACUGUACGGCGAUAGCUGUGAACAGCUGUCGUGACAGCGAUAGUUCCAGUCUUUCCAUGCACUAGCGCAGCGAUCUGGCAGCACUACUGCGUUUAGC
...........((((((..((((((((...((((((((((....)))))))))).))))...))))...))))))...(((((.(((.((.((......)).)).))).)))))..... ( -38.90)
>DroSim_CAF1 3828 119 + 1
AACACAAGAAUAAGCUUUUACUGCUGUACGACGAUAGUUGUGAACAGCUGUCGUGACAGCGAUAGUUCCACUACUCCCAUGCUCUAGCGCAGCGGUCUGGCAGCACGGCUGCGCUUAAC
............(((.......(((((...((((((((((....)))))))))).)))))(((((.....))).))....)))..((((((((.(((.....).)).)))))))).... ( -42.50)
>DroEre_CAF1 1551 119 + 1
GGCACACGAAUAAGCUUUUAUUGUUGUACAGCGUUAGCUGAGAACAGCUGUCGUGACUGCGAUAGUUACCCUACUCUCGUUCUCUAGCGCAACGAUCUGGCAACACUGCUGCGGCUAGC
(((...((....(((......((((((.(((((((.((((((((((((((((((....)))))))))...........)))))).)))..))))..)))))))))..))).)))))... ( -35.60)
>DroYak_CAF1 2540 119 + 1
AACACAAGAAUUAGUUAUUAAUACUCUAUGACGAUAGCUGUGAACAGCUGUCGUGACAGCGAUAGUUCCACUGCUCCCAUGCUCUAGCGCAACGAUCUGGCAGCACUGCUGCGCUUAGC
..(((........(((((.........)))))((((((((....)))))))))))..((((.((((.....((((.((((((......)))......))).))))..)))))))).... ( -35.20)
>consensus
AACACAAGAAUAAGCUUUUACUACUGUACGACGAUAGCUGUGAACAGCUGUCGUGACAGCGAUAGUUCCACUACUCCCAUGCUCUAGCGCAACGAUCUGGCAGCACUGCUGCGCUUAGC
.................(((.((((((...((((((((((....)))))))))).)))))).)))..................(((((((((((...((....)).))))))).)))). (-24.61 = -27.43 +   2.81)

alignment

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secondary structure

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dotplot

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Window 6

Location 20,047,098 – 20,047,211
Length 113
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 86.28
Mean single sequence MFE -36.50
Consensus MFE -25.61
Energy contribution -27.30
Covariance contribution 1.69
Combinations/Pair 1.10
Mean z-score -2.10
Structure conservation index 0.70
SVM decision value 0.70
SVM RNA-class probability 0.827598
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20047098 113 + 22224390
GUGAACAGCUGUCGUGACAGCGAUAGUUCCAGUCUUUCCAUGCACUAGCGCAGCGAUCUGGCAGCACUACUGCGUUUAGCAGAACGCUGUUAGUUACAGUUACAUUUCACAUA
(((((.((((((..((((((((...(((((((....((..(((......)))..)).)))).)))....((((.....))))..))))))))...))))))....)))))... ( -38.20)
>DroSim_CAF1 3867 113 + 1
GUGAACAGCUGUCGUGACAGCGAUAGUUCCACUACUCCCAUGCUCUAGCGCAGCGGUCUGGCAGCACGGCUGCGCUUAACAGCACGCUGUUAGUUACAGUUACAUUUCGCAUA
(((((.((((((..((((((((.(((.....)))......((((..((((((((.(((.....).)).))))))))....))))))))))))...))))))....)))))... ( -42.90)
>DroEre_CAF1 1590 113 + 1
GAGAACAGCUGUCGUGACUGCGAUAGUUACCCUACUCUCGUUCUCUAGCGCAACGAUCUGGCAACACUGCUGCGGCUAGCAGCACACUUUAAGUUACAGUUAUAUAUCGCUUA
(((((((((((((((....)))))))))...........)))))).((((........((....)).((((((.....)))))).......................)))).. ( -30.60)
>DroYak_CAF1 2579 113 + 1
GUGAACAGCUGUCGUGACAGCGAUAGUUCCACUGCUCCCAUGCUCUAGCGCAACGAUCUGGCAGCACUGCUGCGCUUAGCAGCACACUGUAAGUUACAGUUACAUUUCGCCUA
(((((.(((((((((....)))))))))....((((.((((((......)))......))).)))).((((((.....)))))).((((((...)))))).....)))))... ( -34.30)
>consensus
GUGAACAGCUGUCGUGACAGCGAUAGUUCCACUACUCCCAUGCUCUAGCGCAACGAUCUGGCAGCACUGCUGCGCUUAGCAGCACACUGUAAGUUACAGUUACAUUUCGCAUA
((((..(((((((((....))))))))).....................(.(((...((((((((...(((((.....)))))..)))))))).....))).)...))))... (-25.61 = -27.30 +   1.69)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:03 2006