Locus 3850

Sequence ID X_DroMel_CAF1
Location 10,231,203 – 10,231,351
Length 148
Max. P 0.994527
window6335 window6336

overview

Window 5

Location 10,231,203 – 10,231,294
Length 91
Sequences 5
Columns 91
Reading direction reverse
Mean pairwise identity 97.36
Mean single sequence MFE -24.31
Consensus MFE -24.30
Energy contribution -24.14
Covariance contribution -0.16
Combinations/Pair 1.06
Mean z-score -1.38
Structure conservation index 1.00
SVM decision value 1.29
SVM RNA-class probability 0.938538
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10231203 91 - 22224390
CUCUGCAGGGGGAGAGGAGCUGAGAAAUCGGCUUAACUGAGAAUUUAUAAACCAGCGUAAUCUUUUCUCCGCCAAUAACAAAACUCGUCGG
.......((.(((((((((((((....)))))))....((((..((((........)))))))))))))).)).................. ( -24.50)
>DroSec_CAF1 27833 91 - 1
CUCUGCAGGGGGAGAGAAGCUGAGAAAUCGGCUUAACUGAGAAUUUAUAAACCAGCGUAAUCUUUUCUCCGCCAAUAACAAAACUCGUCGG
.......((.(((((((((((((....)))))))....((((..((((........)))))))))))))).)).................. ( -24.10)
>DroSim_CAF1 28274 91 - 1
CUCUGCAGGGGGAGAGGAGCUGAGAAAUCGGCUUAACUGAGAAUUUAUAAACCAGCGUAAUCUUUUCUCCGCCAAUAACAAAACUCGUCGG
.......((.(((((((((((((....)))))))....((((..((((........)))))))))))))).)).................. ( -24.50)
>DroEre_CAF1 28480 90 - 1
CUCUGAAGGGGGAGAGGAGCUGAGAAAUCGGCUUAACUGAGAACUUAUAGACCAGCGUAAU-UUUUCUCCGCCAAUAACAAAACUCGUCGG
.......((.(((((((((((((....)))))))..(((.............)))......-..)))))).)).................. ( -24.22)
>DroYak_CAF1 29238 90 - 1
CUCUGAAGGGGGAGAGGAGCUGAGAAAUCGGCUUAACUGAGAAUUUAUAAACCAGCGUAAU-UUUUCUCCGCCAAUAACAAAACUCGUCGG
.......((.(((((((((((((....)))))))..(((.............)))......-..)))))).)).................. ( -24.22)
>consensus
CUCUGCAGGGGGAGAGGAGCUGAGAAAUCGGCUUAACUGAGAAUUUAUAAACCAGCGUAAUCUUUUCUCCGCCAAUAACAAAACUCGUCGG
.......((.(((((((((((((....)))))))..(((.............))).........)))))).)).................. (-24.30 = -24.14 +  -0.16)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 6

Location 10,231,259 – 10,231,351
Length 92
Sequences 3
Columns 92
Reading direction reverse
Mean pairwise identity 80.47
Mean single sequence MFE -20.30
Consensus MFE -16.57
Energy contribution -16.35
Covariance contribution -0.22
Combinations/Pair 1.06
Mean z-score -2.74
Structure conservation index 0.82
SVM decision value 2.49
SVM RNA-class probability 0.994527
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10231259 92 - 22224390
AUCGCAAAUCGAUCAAGGAAUAUAUAAAAUAUAUAUAUCUAUAUAGAUGUGUUAGAUCUCUGCAGGGGGAGAGGAGCUGAGAAAUCGGCUUA
...(((....((((....(((((((....((((((....)))))).))))))).))))..)))..........(((((((....))))))). ( -22.70)
>DroEre_CAF1 28535 72 - 1
AUCGCAAAUCGGUCAAGGAAUAUA-------------------AAGAUGUGC-UGAUCUCUGAAGGGGGAGAGGAGCUGAGAAAUCGGCUUA
...(((.(((..............-------------------..))).)))-...(((((......))))).(((((((....))))))). ( -19.29)
>DroYak_CAF1 29293 72 - 1
AUCGCAAAUCGGUCAAGGAAUAUA-------------------UAGAUGUGU-AGAUCUCUGAAGGGGGAGAGGAGCUGAGAAAUCGGCUUA
.((.(...((..(((..((.((((-------------------(....))))-)..))..)))..)).).)).(((((((....))))))). ( -18.90)
>consensus
AUCGCAAAUCGGUCAAGGAAUAUA___________________UAGAUGUGU_AGAUCUCUGAAGGGGGAGAGGAGCUGAGAAAUCGGCUUA
...(((.(((...................................))).)))....(((((......))))).(((((((....))))))). (-16.57 = -16.35 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:16 2006