Locus 4897

Sequence ID X_DroMel_CAF1
Location 12,728,970 – 12,729,071
Length 101
Max. P 0.996911
window7992 window7993

overview

Window 2

Location 12,728,970 – 12,729,071
Length 101
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.46
Mean single sequence MFE -29.32
Consensus MFE -17.13
Energy contribution -17.33
Covariance contribution 0.20
Combinations/Pair 1.26
Mean z-score -3.29
Structure conservation index 0.58
SVM decision value 2.77
SVM RNA-class probability 0.996911
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12728970 101 + 22224390
ACCGAAAC----------CUCGCGGAUUUUGCUUACUAAGAAGAUACAU--AUUC-UA------CAUAUGUAUGAAAACCAACAAGUGAGCGAAAUGCGAAGGGGUUCCAAAUUUAUUUG
...(.(((----------(((.((.((((((((((((......((((((--((..-..------.))))))))(.....)....)))))))))))).))..)))))).)........... ( -29.10)
>DroSec_CAF1 81615 102 + 1
AGCGAAAC----------CCCGUGGAUUUUGCUUACUAAGAAGAUAAAU--AUACAUA------CAUAUGUAUGAAAUCCAACGAGUGAGCGAAAUGCGAAGGGGUUCCAAAUUUAUUUG
...(.(((----------(((.((.((((((((((((.....(((...(--((((((.------...)))))))..))).....)))))))))))).))..)))))).)........... ( -32.90)
>DroSim_CAF1 65703 102 + 1
ACCGAAAC----------CCCGGGGAUUUUGCUUACUAAGAAGAUAAAU--AUACAUA------CAUAUGUAUGAAAACCAACGAGUGAGCGAAAUGCGAAGGGGUUCCAAAUUUAUUUG
...(.(((----------(((..(.((((((((((((...........(--((((((.------...)))))))..........)))))))))))).)...)))))).)........... ( -31.00)
>DroEre_CAF1 80410 120 + 1
ACCGAAACCGUUCGUCGCCUCGCGGAUUUUGCUUACAAAGAAUAUACAUAUGUGCAUAUAUGUAUGUAUGUAUGAAAACCAACAAGUAAACGAAAUGCGAAGAGGUUCCAAACUUAUUUG
.........(((.(..(((((.((.((((((.((((.......(((((((((((((....)))))))))))))(.....).....)))).)))))).))..)))))..).)))....... ( -30.70)
>DroYak_CAF1 84650 113 + 1
ACCGAAACCGGUGAACACCUCGCUAAUUUUGCUUACAAAGAAUAUA--UAAGUACGUAU-----UGUAUGUAUGAAAAGCAACAAGUAAACGAAAUGCGAAGAGGUUCCAAAUUUAUUUG
((((....))))((((..(((((..((((((.((((.....(((((--(((.......)-----))))))).((.....))....)))).))))))))).))..))))............ ( -22.90)
>consensus
ACCGAAAC__________CUCGCGGAUUUUGCUUACUAAGAAGAUAAAU__AUACAUA______CAUAUGUAUGAAAACCAACAAGUGAGCGAAAUGCGAAGGGGUUCCAAAUUUAUUUG
..................(((..(.((((((((((((..............(((((((........)))))))...........)))))))))))).)...)))................ (-17.13 = -17.33 +   0.20)

alignment

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secondary structure

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dotplot

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Window 3

Location 12,728,970 – 12,729,071
Length 101
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 80.46
Mean single sequence MFE -25.60
Consensus MFE -10.55
Energy contribution -10.15
Covariance contribution -0.40
Combinations/Pair 1.22
Mean z-score -2.28
Structure conservation index 0.41
SVM decision value 0.40
SVM RNA-class probability 0.721683
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12728970 101 - 22224390
CAAAUAAAUUUGGAACCCCUUCGCAUUUCGCUCACUUGUUGGUUUUCAUACAUAUG------UA-GAAU--AUGUAUCUUCUUAGUAAGCAAAAUCCGCGAG----------GUUUCGGU
.........((((((((...((((((((.(((.(((....((.....((((((((.------..-..))--))))))...)).))).))).))))..)))))----------))))))). ( -24.00)
>DroSec_CAF1 81615 102 - 1
CAAAUAAAUUUGGAACCCCUUCGCAUUUCGCUCACUCGUUGGAUUUCAUACAUAUG------UAUGUAU--AUUUAUCUUCUUAGUAAGCAAAAUCCACGGG----------GUUUCGCU
...........((((((((...(.((((.(((.(((....((((...((((((...------.))))))--....))))....))).))).)))).)..)))----------)))))... ( -25.90)
>DroSim_CAF1 65703 102 - 1
CAAAUAAAUUUGGAACCCCUUCGCAUUUCGCUCACUCGUUGGUUUUCAUACAUAUG------UAUGUAU--AUUUAUCUUCUUAGUAAGCAAAAUCCCCGGG----------GUUUCGGU
.........((((((((((...(.((((.(((.(((....(((....((((((...------.))))))--....))).....))).))).)))).)..)))----------))))))). ( -24.20)
>DroEre_CAF1 80410 120 - 1
CAAAUAAGUUUGGAACCUCUUCGCAUUUCGUUUACUUGUUGGUUUUCAUACAUACAUACAUAUAUGCACAUAUGUAUAUUCUUUGUAAGCAAAAUCCGCGAGGCGACGAACGGUUUCGGU
.........((((((((..((((....((((...(((((.(((((((.((((...((((((((......))))))))......)))).).)))))).))))))))))))).)))))))). ( -29.30)
>DroYak_CAF1 84650 113 - 1
CAAAUAAAUUUGGAACCUCUUCGCAUUUCGUUUACUUGUUGCUUUUCAUACAUACA-----AUACGUACUUA--UAUAUUCUUUGUAAGCAAAAUUAGCGAGGUGUUCACCGGUUUCGGU
.........((((((((.....((((((((((......(((((.....((((...(-----(((..(....)--..))))...)))))))))....)))))))))).....)))))))). ( -24.60)
>consensus
CAAAUAAAUUUGGAACCCCUUCGCAUUUCGCUCACUUGUUGGUUUUCAUACAUAUG______UAUGUAU__AUGUAUCUUCUUAGUAAGCAAAAUCCGCGAG__________GUUUCGGU
..........((((((......((.....))...(((((.(((((((.(((.................................))).).)))))).)))))..........)))))).. (-10.55 = -10.15 +  -0.40)

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 11:35:37 2006