Locus 2817

Sequence ID X_DroMel_CAF1
Location 7,540,505 – 7,540,642
Length 137
Max. P 0.987955
window4623 window4624

overview

Window 3

Location 7,540,505 – 7,540,613
Length 108
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 71.06
Mean single sequence MFE -21.63
Consensus MFE -8.30
Energy contribution -8.30
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.88
Structure conservation index 0.38
SVM decision value 1.16
SVM RNA-class probability 0.924216
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7540505 108 + 22224390
AAG----------AAGGGUGAAUGAAAAGUAA--GUUUGGAACUCUGCGCAAGUAUGUCGAUUUGUAUUAUAUUUUAUGCAAAUCCAGCUUAUUCUAUAAAUAUCCACAAAGAAUUAAAC
...----------..(((((.......(((((--(((.(((....(((....)))..))(((((((((........)))))))))))))))))).......))))).............. ( -21.74)
>DroSec_CAF1 33629 91 + 1
AAG----------AAGGGUGCAUGAAAAGUAA------------------AAGU-UUUCGAUUUGUAUUAUAUUUUAUGCAAAUCCACCAUCUUCUAUAAAUAUUCACAAAGAAUAAAAC
.((----------(((((((...(((((....------------------...)-))))(((((((((........)))))))))))))..))))).....(((((.....))))).... ( -20.50)
>DroSim_CAF1 34004 91 + 1
AAG----------AAGGGUGCAUGAAAAGUAA------------------AAGU-UUUCGAUUUGUAUUAUAUUUUAUGCAAAUCCACCAUCUUCUAUAAAUAUUCACAAAGAAUAAAAC
.((----------(((((((...(((((....------------------...)-))))(((((((((........)))))))))))))..))))).....(((((.....))))).... ( -20.50)
>DroYak_CAF1 34373 109 + 1
AGGGUGCAUCAAAUAUAGUGCAUGAAAAGUAAAACUUUGAAACUCUGCGCAAGUAUGCCGAUUUGUAUUAUAUUUUAUGCAAAUCCACAA---UCUAUAAAUACC--------AUCCUAA
.((((((((.((((((((((((...((((.....)))).......(((....)))........)))))))))))).)))))..)))....---............--------....... ( -23.80)
>consensus
AAG__________AAGGGUGCAUGAAAAGUAA__________________AAGU_UGUCGAUUUGUAUUAUAUUUUAUGCAAAUCCACCAUCUUCUAUAAAUAUCCACAAAGAAUAAAAC
...........................................................(((((((((........)))))))))................................... ( -8.30 =  -8.30 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 4

Location 7,540,533 – 7,540,642
Length 109
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 70.34
Mean single sequence MFE -15.86
Consensus MFE -8.18
Energy contribution -8.18
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.34
Structure conservation index 0.52
SVM decision value 2.10
SVM RNA-class probability 0.987955
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7540533 109 + 22224390
AACUCUGCGCAAGUAUGUCGAUUUGUAUUAUAUUUUAUGCAAAUCCAGCUUAUUCUAUAAAUAUCCACAAAGAAUUAAACAU----GUAUAUUUGGCAUAAACUAUUUACCAA
.....(((.((((((((.((((((((((........)))))))))......(((((..............))))).......----))))))))))))............... ( -17.64)
>DroSim_CAF1 34026 98 + 1
----------AAGU-UUUCGAUUUGUAUUAUAUUUUAUGCAAAUCCACCAUCUUCUAUAAAUAUUCACAAAGAAUAAAACAU----GUAUGUCUGGCAUAAACUAUUUACCAA
----------..((-((..(((((((((........)))))))))................(((((.....)))))))))..----.((((.....))))............. ( -13.30)
>DroEre_CAF1 44308 110 + 1
AACUCUGCGUAAGUAUGUCGAUUUGUAUUUUAUUUAAUGCAAAUCCAUCA---ACUAUAAAUAUCUACAAAGCAUAAAAUAUAAACAUAUAUUUGGCAUAAGCUAUUUACCAA
.....((.(((((((.((.((((((((((......)))))))))).....---..................((...(((((((....))))))).))....))))))))))). ( -20.60)
>DroYak_CAF1 34413 90 + 1
AACUCUGCGCAAGUAUGCCGAUUUGUAUUAUAUUUUAUGCAAAUCCACAA---UCUAUAAAUACC--------AUCCUAAAUACCCAUCUAAU-------ACCUAU-----AA
.....(((....)))((..(((((((((........)))))))))..)).---............--------....................-------......-----.. ( -11.90)
>consensus
AACUCUGCGCAAGUAUGUCGAUUUGUAUUAUAUUUUAUGCAAAUCCACCA___UCUAUAAAUAUCCACAAAGAAUAAAACAU____AUAUAUUUGGCAUAAACUAUUUACCAA
...................(((((((((........))))))))).................................................................... ( -8.18 =  -8.18 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:16 2006