Locus 313

Sequence ID X_DroMel_CAF1
Location 992,800 – 992,907
Length 107
Max. P 0.959794
window475 window476

overview

Window 5

Location 992,800 – 992,907
Length 107
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.25
Mean single sequence MFE -30.26
Consensus MFE -20.78
Energy contribution -21.02
Covariance contribution 0.24
Combinations/Pair 1.05
Mean z-score -1.73
Structure conservation index 0.69
SVM decision value 0.41
SVM RNA-class probability 0.724777
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 992800 107 + 22224390
UCGUUUUGCGUAUGGAGU-----UCUUUGUUGCGUU---UUUGUUUGACCUGCUCUUCACUUGAGCAGCCUCAAGUGUGUAAAGCAAAAGUGCGCAAUGUCGAGCAUCAACGU-----UU
.......((((.((..((-----((..(((((((((---(((((((....(((....((((((((....)))))))).)))))))))))..))))))))..))))..))))))-----.. ( -34.50)
>DroSec_CAF1 75332 104 + 1
UCGCUUUGCGUAUGGAGU-----UCUUUGUUGCCUU---UUUGUUUGACUUGCUCUUCACUUGAGCCGCCUCAAGUGUGUAAAGCAAAAGUUAGCAAUGUCGAGCAUCAACG--------
........(((.((..((-----((..((((((.((---(((((((....(((....((((((((....)))))))).))))))))))))...))))))..))))..)))))-------- ( -28.50)
>DroSim_CAF1 54700 107 + 1
UCGCUUUGCGUAUGGAGU-----UCUUUGUUGCGUU---UUUGUUUGACCUGCUCUUCACUUGAGCCGCCUCAAGUGUGUAAAGCAAAAGUGCGCAAUGUCGAGCAUCAACGU-----UU
.......((((.((..((-----((..(((((((((---(((((((....(((....((((((((....)))))))).)))))))))))..))))))))..))))..))))))-----.. ( -34.50)
>DroEre_CAF1 88820 96 + 1
UUGCUUUAUGUC---------------------AUU---UUUGUUUGACCUGCUCUUCACUUGAGGCGCCUCAAGUGUGUAAAGCAAAAGUACGCAAUGUCGAGCAUCAACAUCAACGUU
((((((((((((---------------------(..---......))))........((((((((....)))))))).)))))))))....(((..((((.(.....).))))...))). ( -26.20)
>DroYak_CAF1 81245 111 + 1
UCGCUUUGCGUUUGGAGUUCAGUUCUUUGUUGUAUUUGUGUUGUUUGACCUGCUCUUCAGUUGAGGCGCCUCAAGUGUGCAAAGCAAAAGUACGCAAUCUCGAGCAUCAGC---------
..(((.(((....((((.......)))).(((...((((((..((((...(((....((.(((((....))))).)).)))...))))...))))))...))))))..)))--------- ( -27.60)
>consensus
UCGCUUUGCGUAUGGAGU_____UCUUUGUUGCAUU___UUUGUUUGACCUGCUCUUCACUUGAGCCGCCUCAAGUGUGUAAAGCAAAAGUACGCAAUGUCGAGCAUCAACGU_____UU
.........................................((((((((.(((....((((((((....)))))))).)))..((........))...)))))))).............. (-20.78 = -21.02 +   0.24)

alignment

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secondary structure

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dotplot

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Window 6

Location 992,800 – 992,907
Length 107
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 80.25
Mean single sequence MFE -27.26
Consensus MFE -21.18
Energy contribution -20.86
Covariance contribution -0.32
Combinations/Pair 1.18
Mean z-score -2.15
Structure conservation index 0.78
SVM decision value 1.51
SVM RNA-class probability 0.959794
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 992800 107 - 22224390
AA-----ACGUUGAUGCUCGACAUUGCGCACUUUUGCUUUACACACUUGAGGCUGCUCAAGUGAAGAGCAGGUCAAACAAA---AACGCAACAAAGA-----ACUCCAUACGCAAAACGA
..-----.((((..(((..(((.(((((((....)))......((((((((....))))))))....))))))).......---..(........).-----.........))).)))). ( -26.40)
>DroSec_CAF1 75332 104 - 1
--------CGUUGAUGCUCGACAUUGCUAACUUUUGCUUUACACACUUGAGGCGGCUCAAGUGAAGAGCAAGUCAAACAAA---AAGGCAACAAAGA-----ACUCCAUACGCAAAGCGA
--------((((..(((..(((.(((((......((.....))((((((((....))))))))...)))))))).......---..(....).....-----.........))).)))). ( -26.20)
>DroSim_CAF1 54700 107 - 1
AA-----ACGUUGAUGCUCGACAUUGCGCACUUUUGCUUUACACACUUGAGGCGGCUCAAGUGAAGAGCAGGUCAAACAAA---AACGCAACAAAGA-----ACUCCAUACGCAAAGCGA
..-----.((((..(((..(((.(((((((....)))......((((((((....))))))))....))))))).......---..(........).-----.........))).)))). ( -26.40)
>DroEre_CAF1 88820 96 - 1
AACGUUGAUGUUGAUGCUCGACAUUGCGUACUUUUGCUUUACACACUUGAGGCGCCUCAAGUGAAGAGCAGGUCAAACAAA---AAU---------------------GACAUAAAGCAA
.((((.(((((((.....)))))))))))....((((((((..((((((((....))))))))........((((......---..)---------------------))).)))))))) ( -32.30)
>DroYak_CAF1 81245 111 - 1
---------GCUGAUGCUCGAGAUUGCGUACUUUUGCUUUGCACACUUGAGGCGCCUCAACUGAAGAGCAGGUCAAACAACACAAAUACAACAAAGAACUGAACUCCAAACGCAAAGCGA
---------....((((........))))....(((((((((.((.(((((....))))).))..((((((.((.....................)).)))..))).....))))))))) ( -25.00)
>consensus
AA_____ACGUUGAUGCUCGACAUUGCGCACUUUUGCUUUACACACUUGAGGCGGCUCAAGUGAAGAGCAGGUCAAACAAA___AACGCAACAAAGA_____ACUCCAUACGCAAAGCGA
........((((...((........)).....((((((((...((((((((....)))))))).))))))))...........................................)))). (-21.18 = -20.86 +  -0.32)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:29 2006