Locus 5298

Sequence ID 3R_DroMel_CAF1
Location 13,827,986 – 13,828,081
Length 95
Max. P 0.971367
window8641 window8642

overview

Window 1

Location 13,827,986 – 13,828,081
Length 95
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 80.86
Mean single sequence MFE -28.23
Consensus MFE -17.31
Energy contribution -17.20
Covariance contribution -0.11
Combinations/Pair 1.12
Mean z-score -3.69
Structure conservation index 0.61
SVM decision value 1.67
SVM RNA-class probability 0.971367
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13827986 95 + 27905053
AGCAAUCCACAUCGCGUAUACGCGAUGUUUGCCAGACGCGUGAGCUAAAUGCCAAAAACCGAAUGGCUGGGCGAAAAAAAAGGAUGGAAAAUCGA
....((((((((((((....))))))))(((((....((....)).....((((.........))))..))))).......)))).......... ( -32.20)
>DroSec_CAF1 99700 78 + 1
AGCAAUCCACAUCGCGUAUACGCGAUGUUUGCCAGACGCGUGAGCUAAAUGCCAAAAACCGA-----------------AAGGAUGGAAAAUCGA
.....(((((((((((....)))))))((((.((...((....))....)).))))..((..-----------------..)).))))....... ( -26.20)
>DroSim_CAF1 102354 78 + 1
AGCAACCCACAUCGCGUAUACGCGAUGUUUGCCAGACGCGUGAGCUAAAUGCCAAAAGCCGA-----------------AAGGAUGGAAAAUCGA
.((((...((((((((....)))))))))))).....((....))......(((....((..-----------------..)).)))........ ( -26.70)
>DroEre_CAF1 100087 94 + 1
AGCAAUCCACAUCGCGUAUACGCGAUGUUUGCCAGACGCGUGAGCUAAAUGCCAAA-ACCGAAUGGCAGGGCGAACAAGAGAGAAGGAAAAUCGA
.....(((..((((((....))))))(((((((....((....))....(((((..-......))))).))))))).........)))....... ( -34.10)
>DroYak_CAF1 107151 76 + 1
AGUAGUCCACAUCGCGUAUACGCGAUGUUUGCCAGGCGCGUGAGCUAAAUGCCAAA-ACCGAA------------------GGAAGGAAAAUCGA
.....(((((((((((....))))))))......(((((....)).....)))...-......------------------)))........... ( -23.30)
>DroAna_CAF1 98515 84 + 1
AGCAAUCCAGAUCGCGUAUACGCGAUGUUUGCCCGACGCGUGAGCUAAAUGCCAAG-CCAGAAAGGCA-----A-----ACGAAAGGAAAAAUAA
.....(((..((((((....))))))(((((((....((.((.((.....)))).)-)......))))-----)-----))....)))....... ( -26.90)
>consensus
AGCAAUCCACAUCGCGUAUACGCGAUGUUUGCCAGACGCGUGAGCUAAAUGCCAAA_ACCGAA________________AAGGAAGGAAAAUCGA
.((((...((((((((....)))))))))))).....((((.......))))........................................... (-17.31 = -17.20 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 2

Location 13,827,986 – 13,828,081
Length 95
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 80.86
Mean single sequence MFE -24.02
Consensus MFE -18.77
Energy contribution -18.97
Covariance contribution 0.19
Combinations/Pair 1.06
Mean z-score -1.98
Structure conservation index 0.78
SVM decision value 0.93
SVM RNA-class probability 0.884548
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13827986 95 - 27905053
UCGAUUUUCCAUCCUUUUUUUUCGCCCAGCCAUUCGGUUUUUGGCAUUUAGCUCACGCGUCUGGCAAACAUCGCGUAUACGCGAUGUGGAUUGCU
..........((((.........(((..((((.........)))).....((....))....)))..((((((((....)))))))))))).... ( -27.50)
>DroSec_CAF1 99700 78 - 1
UCGAUUUUCCAUCCUU-----------------UCGGUUUUUGGCAUUUAGCUCACGCGUCUGGCAAACAUCGCGUAUACGCGAUGUGGAUUGCU
..........((((..-----------------.......(((.((....((....))...)).)))((((((((....)))))))))))).... ( -20.70)
>DroSim_CAF1 102354 78 - 1
UCGAUUUUCCAUCCUU-----------------UCGGCUUUUGGCAUUUAGCUCACGCGUCUGGCAAACAUCGCGUAUACGCGAUGUGGGUUGCU
.(((............-----------------)))((.....))...((((((((((.....))....((((((....)))))))))))))).. ( -21.10)
>DroEre_CAF1 100087 94 - 1
UCGAUUUUCCUUCUCUCUUGUUCGCCCUGCCAUUCGGU-UUUGGCAUUUAGCUCACGCGUCUGGCAAACAUCGCGUAUACGCGAUGUGGAUUGCU
.......(((.............(((.(((((......-..)))))....((....))....)))..((((((((....)))))))))))..... ( -28.00)
>DroYak_CAF1 107151 76 - 1
UCGAUUUUCCUUCC------------------UUCGGU-UUUGGCAUUUAGCUCACGCGCCUGGCAAACAUCGCGUAUACGCGAUGUGGACUACU
.......(((..((------------------...(((-..((((.....)).))...))).))...((((((((....)))))))))))..... ( -20.10)
>DroAna_CAF1 98515 84 - 1
UUAUUUUUCCUUUCGU-----U-----UGCCUUUCUGG-CUUGGCAUUUAGCUCACGCGUCGGGCAAACAUCGCGUAUACGCGAUCUGGAUUGCU
.......(((....((-----(-----(((((..(..(-(.((((.....)).)).)))..))))))))((((((....))))))..)))..... ( -26.70)
>consensus
UCGAUUUUCCAUCCUU________________UUCGGU_UUUGGCAUUUAGCUCACGCGUCUGGCAAACAUCGCGUAUACGCGAUGUGGAUUGCU
.......(((..............................(((.((....((....))...)).)))((((((((....)))))))))))..... (-18.77 = -18.97 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:22 2006