Locus 4703

Sequence ID 3L_DroMel_CAF1
Location 13,252,122 – 13,252,224
Length 102
Max. P 0.999165
window7417 window7418

overview

Window 7

Location 13,252,122 – 13,252,224
Length 102
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 75.72
Mean single sequence MFE -27.69
Consensus MFE -22.88
Energy contribution -23.28
Covariance contribution 0.40
Combinations/Pair 1.26
Mean z-score -3.14
Structure conservation index 0.83
SVM decision value 3.41
SVM RNA-class probability 0.999165
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13252122 102 + 23771897
CGUUUCUCACUUUUGGAGAGAAUUUUGGGAAAUACAGUAC--------ACAAAGGG------CCUAUAUUCACUUUCAUUUAUUUUCUUUAAAAGUGAAAAUCGCAGUAAAUCUGU
......(((((((((((((((((..((..(((((.((..(--------......).------.)).))))...)..))...))))))))))))))))).....((((.....)))) ( -25.10)
>DroSec_CAF1 14878 91 + 1
UGGUUCUCACUUUUGGAGAGAGUUUUGGGAAGUAUGAUAU-------------------------AUAUGCACUUUGAUUUAUUUUCUUCAAAAGUGAAAGUCGCAGUAAAUCUGU
.(..(.(((((((((((((((((.(..((..(((((....-------------------------.)))))..))..)...))))))))))))))))).)..)((((.....)))) ( -27.90)
>DroSim_CAF1 15362 101 + 1
CGGUUCUCACUUUUGGAGAGAGUUUUGGGAAGUAAGAUAU--------ACAAAGGA-------CUAUAUGCACUUUCAUUUAUUUUCUUCAAAAGUGAAAAUCGCAGUAAAUCUGU
.((((.(((((((((((((((((....((((((...((((--------(.......-------.)))))..))))))....))))))))))))))))).))))((((.....)))) ( -33.80)
>DroEre_CAF1 14168 102 + 1
CGGUUCUCACUUUUGGAGAGAGUUUUGGGUAGUAAGCUAA--------ACAUAAGG------AACCUAUUCGCUUUCAUUUAUUUUACUCAAAAGUGAAAACCGUAGCCAACCUGU
(((((.((((((((((.((((((..(((((..........--------........------.)))))...))))))...........)))))))))).)))))............ ( -24.21)
>DroYak_CAF1 15090 116 + 1
CGGUUCUCACUUUUGGAGAGAGUUUUCAGCAGUAAGUUAAUAAAAUAAAAAAAAGGGAUGCAAACUUAUUCGCUUUCAUUUACUUUAUUCAAAAGUGAAAAUCGUAGCCAACCUGC
(((((.(((((((((((.(((((....(((((((((((........................)))))))).))).......))))).))))))))))).)))))............ ( -27.46)
>consensus
CGGUUCUCACUUUUGGAGAGAGUUUUGGGAAGUAAGAUAA________ACAAAAGG_______ACAUAUUCACUUUCAUUUAUUUUCUUCAAAAGUGAAAAUCGCAGUAAAUCUGU
.((((.(((((((((((((((((....((((((......................................))))))....))))))))))))))))).))))((((.....)))) (-22.88 = -23.28 +   0.40)

alignment

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secondary structure

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dotplot

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Window 8

Location 13,252,122 – 13,252,224
Length 102
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 75.72
Mean single sequence MFE -21.14
Consensus MFE -9.50
Energy contribution -10.14
Covariance contribution 0.64
Combinations/Pair 1.06
Mean z-score -2.10
Structure conservation index 0.45
SVM decision value 1.05
SVM RNA-class probability 0.907244
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13252122 102 - 23771897
ACAGAUUUACUGCGAUUUUCACUUUUAAAGAAAAUAAAUGAAAGUGAAUAUAGG------CCCUUUGU--------GUACUGUAUUUCCCAAAAUUCUCUCCAAAAGUGAGAAACG
.(((.....)))((.(((((((((((..(((.(((...((...(..(((((((.------.(......--------)..)))))))..)))..))).)))..))))))))))).)) ( -19.00)
>DroSec_CAF1 14878 91 - 1
ACAGAUUUACUGCGACUUUCACUUUUGAAGAAAAUAAAUCAAAGUGCAUAU-------------------------AUAUCAUACUUCCCAAAACUCUCUCCAAAAGUGAGAACCA
.(((.....)))....(((((((((((.(((..........(((((.....-------------------------......)))))..........))).))))))))))).... ( -14.95)
>DroSim_CAF1 15362 101 - 1
ACAGAUUUACUGCGAUUUUCACUUUUGAAGAAAAUAAAUGAAAGUGCAUAUAG-------UCCUUUGU--------AUAUCUUACUUCCCAAAACUCUCUCCAAAAGUGAGAACCG
.(((.....)))((.((((((((((((.(((.........((((..(.....)-------..))))((--------(.....)))............))).)))))))))))).)) ( -20.20)
>DroEre_CAF1 14168 102 - 1
ACAGGUUGGCUACGGUUUUCACUUUUGAGUAAAAUAAAUGAAAGCGAAUAGGUU------CCUUAUGU--------UUAGCUUACUACCCAAAACUCUCUCCAAAAGUGAGAACCG
............((((((((((((((((((((..((((((.(((.(((....))------)))).)))--------)))..)))))...............))))))))))))))) ( -27.36)
>DroYak_CAF1 15090 116 - 1
GCAGGUUGGCUACGAUUUUCACUUUUGAAUAAAGUAAAUGAAAGCGAAUAAGUUUGCAUCCCUUUUUUUUAUUUUAUUAACUUACUGCUGAAAACUCUCUCCAAAAGUGAGAACCG
((......))..((.(((((((((((((((((((((((.(((((.((...........)).))))).)))))))))))...........((......))..)))))))))))).)) ( -24.20)
>consensus
ACAGAUUUACUGCGAUUUUCACUUUUGAAGAAAAUAAAUGAAAGUGAAUAUAG_______CCCUUUGU________AUAUCUUACUUCCCAAAACUCUCUCCAAAAGUGAGAACCG
.............(.((((((((((((.(((..................................................................))).)))))))))))).). ( -9.50 = -10.14 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:17 2006