Locus 6279

Sequence ID X_DroMel_CAF1
Location 15,948,001 – 15,948,109
Length 108
Max. P 0.937045
window10229 window10230

overview

Window 9

Location 15,948,001 – 15,948,109
Length 108
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 74.89
Mean single sequence MFE -29.12
Consensus MFE -18.19
Energy contribution -20.75
Covariance contribution 2.56
Combinations/Pair 1.17
Mean z-score -1.98
Structure conservation index 0.62
SVM decision value 1.26
SVM RNA-class probability 0.937045
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15948001 108 + 22224390
----------CGAUGCUAUGUAAUACUAUAUAAC--ACUGUGACGAGAUGGUCCCUGAGAUUUAAAUUCAGAUUUGAAUCUGAAAGUUACUCGCACAUUUGUGAUAUACAGCCAUCUUCG
----------...((.((((((....)))))).)--)......(((((((((...(.((((((((((....)))))))))).)..((...(((((....)))))...)).)))))).))) ( -24.40)
>DroSec_CAF1 16421 115 + 1
UUUA--GUAUCUAUGCUGUGUAGUACUAUCAUACGGACAGGGGC--GAUGGUCCCUGAGAUUUAAAUUCAGAUUCGAAUCUGA-AGUAGCUCGCACAUUUGUGAUAUACAGCCAUCUUCG
....--........((((((((.........(((...(((((((--....))))))).........(((((((....))))))-))))..(((((....)))))))))))))........ ( -33.60)
>DroSim_CAF1 10924 116 + 1
UUAAAUGUAUCUAUGCUGUGUAAUACUAUAUAAC--ACAGGGGC--GAUGGUCCCUGAGAUUUAAAUUCAGAUUCGAAUCUGAAAGUAGCUCGCACAUUUGUGAUAUACAGCCAUCUUCG
..............((((((((.((((.......--.(((((((--....))))))).........(((((((....)))))))))))..(((((....)))))))))))))........ ( -34.30)
>DroEre_CAF1 15523 91 + 1
-------UAUCUAUGCUGCGUAUUAA----------------------AUCUGCCUGAGAUUUAAACUCGGAUUCGAAUCUGAGAGUAGCCCGCACAUUGGUGAUGUACAGCCAGCUUCG
-------.......(((((...((((----------------------((((.....)))))))).(((((((....))))))).))))).......(((((........)))))..... ( -24.20)
>consensus
_______UAUCUAUGCUGUGUAAUACUAUAUAAC__ACAGGGGC__GAUGGUCCCUGAGAUUUAAAUUCAGAUUCGAAUCUGAAAGUAGCUCGCACAUUUGUGAUAUACAGCCAUCUUCG
..............((((((((...............(((((((......))))))).((.(((..(((((((....)))))))..))).)).(((....))).))))))))........ (-18.19 = -20.75 +   2.56)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,948,001 – 15,948,109
Length 108
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 74.89
Mean single sequence MFE -26.05
Consensus MFE -15.66
Energy contribution -15.35
Covariance contribution -0.31
Combinations/Pair 1.22
Mean z-score -1.63
Structure conservation index 0.60
SVM decision value 0.01
SVM RNA-class probability 0.539995
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15948001 108 - 22224390
CGAAGAUGGCUGUAUAUCACAAAUGUGCGAGUAACUUUCAGAUUCAAAUCUGAAUUUAAAUCUCAGGGACCAUCUCGUCACAGU--GUUAUAUAGUAUUACAUAGCAUCG----------
....((((((((((((.(((...((((((((.....(((((((....))))))).......))).(((.....)))).))))))--).)))))))).........)))).---------- ( -27.10)
>DroSec_CAF1 16421 115 - 1
CGAAGAUGGCUGUAUAUCACAAAUGUGCGAGCUACU-UCAGAUUCGAAUCUGAAUUUAAAUCUCAGGGACCAUC--GCCCCUGUCCGUAUGAUAGUACUACACAGCAUAGAUAC--UAAA
.((((.(((((((((((.....)))))).)))))))-))(((((..(((....)))..)))))(((((......--..))))).........((((((((.......))).)))--)).. ( -28.70)
>DroSim_CAF1 10924 116 - 1
CGAAGAUGGCUGUAUAUCACAAAUGUGCGAGCUACUUUCAGAUUCGAAUCUGAAUUUAAAUCUCAGGGACCAUC--GCCCCUGU--GUUAUAUAGUAUUACACAGCAUAGAUACAUUUAA
....(((((((((((((.....))))))(((.((..(((((((....)))))))..))...)))..)).)))))--....((((--((.(((...))).))))))............... ( -26.30)
>DroEre_CAF1 15523 91 - 1
CGAAGCUGGCUGUACAUCACCAAUGUGCGGGCUACUCUCAGAUUCGAAUCCGAGUUUAAAUCUCAGGCAGAU----------------------UUAAUACGCAGCAUAGAUA-------
....((((.((((((((.....))))))))..........((((((....))))))(((((((.....))))----------------------))).....)))).......------- ( -22.10)
>consensus
CGAAGAUGGCUGUAUAUCACAAAUGUGCGAGCUACUUUCAGAUUCGAAUCUGAAUUUAAAUCUCAGGGACCAUC__GCCCCUGU__GUUAUAUAGUAUUACACAGCAUAGAUA_______
........(((((....(((....))).(((.....(((((((....))))))).......))).....................................))))).............. (-15.66 = -15.35 +  -0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:23 2006