Locus 4963

Sequence ID 2L_DroMel_CAF1
Location 14,250,382 – 14,250,479
Length 97
Max. P 0.874967
window7873 window7874

overview

Window 3

Location 14,250,382 – 14,250,479
Length 97
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 82.30
Mean single sequence MFE -18.49
Consensus MFE -13.65
Energy contribution -13.65
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.52
Structure conservation index 0.74
SVM decision value 0.89
SVM RNA-class probability 0.874967
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14250382 97 + 22407834
GAAACUGACAGUUUGACGUUUUAACUCACGCGCCAAACG-------CCAAACGUCAAACGGCAGCAACAACCAACA--CAAUAUCAACAUC------AGCAACAUAGUAAUA
....((((..(((((((((((........(((.....))-------).)))))))))))((.........))....--...........))------))............. ( -17.40)
>DroSec_CAF1 83228 90 + 1
GAAACUGACAGUUUGACGUUUUAACUCACGCGCCA--------------AACGUCAAACGGCAGCAACAACCAACA--CAAUAUCAACAUC------AGCAACAUAGUAAUA
....((((..(((((((((((.............)--------------))))))))))((.........))....--...........))------))............. ( -15.52)
>DroSim_CAF1 75210 90 + 1
GAAACUGACAGUUUGACGUUUUAACUCACGCGCCA--------------AACGUCAAACGGCAGCAACAACCAACA--CAAUAUCAACAUC------AGCAACAUAGUAAUA
....((((..(((((((((((.............)--------------))))))))))((.........))....--...........))------))............. ( -15.52)
>DroEre_CAF1 84131 106 + 1
GAAACUGACAGUUUGACGUUUUAACUCACGCGCCAAACGGCAAACGCCAAACGUCAAACGGCAGCAACAACCAACACACAAUAUCAACAUC------AGCAACAUAGUAAUA
....((((..(((((((((((..........(.....)(((....))))))))))))))((.........)).................))------))............. ( -19.60)
>DroYak_CAF1 72636 104 + 1
GAAGCUGACAGUUUGACGUUUUAACUCACGCGCCAAACGCCAAACGCUAAACGUCAAACGGCAGCAACAACCAACA--CAAUAUCAACAUC------AGCAACAUAGUAAUA
...(((((..(((((((((((........(((.....)))........)))))))))))((.........))....--...........))------)))............ ( -24.89)
>DroAna_CAF1 85372 92 + 1
GGAACUGACAGUUUGACGUUUUAACUCACGCGCCA--------------AACGUCAAACGGCAGCUACGA----AA--CAAUGGCCAUACCCCAAUACCCCAUACCCCAAUA
((..(((...(((((((((((.............)--------------))))))))))..)))......----..--...(((.......))).....))........... ( -18.02)
>consensus
GAAACUGACAGUUUGACGUUUUAACUCACGCGCCA______________AACGUCAAACGGCAGCAACAACCAACA__CAAUAUCAACAUC______AGCAACAUAGUAAUA
....(((...((((((((((.............................))))))))))..)))................................................ (-13.65 = -13.65 +   0.00)

alignment

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secondary structure

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dotplot

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Window 4

Location 14,250,382 – 14,250,479
Length 97
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 82.30
Mean single sequence MFE -28.80
Consensus MFE -17.19
Energy contribution -17.05
Covariance contribution -0.14
Combinations/Pair 1.06
Mean z-score -2.28
Structure conservation index 0.60
SVM decision value 0.22
SVM RNA-class probability 0.639397
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14250382 97 - 22407834
UAUUACUAUGUUGCU------GAUGUUGAUAUUG--UGUUGGUUGUUGCUGCCGUUUGACGUUUGG-------CGUUUGGCGCGUGAGUUAAAACGUCAAACUGUCAGUUUC
............(((------(((((..(.....--...((((.......)))).)..))((((((-------(((((...((....))..))))))))))).))))))... ( -27.10)
>DroSec_CAF1 83228 90 - 1
UAUUACUAUGUUGCU------GAUGUUGAUAUUG--UGUUGGUUGUUGCUGCCGUUUGACGUU--------------UGGCGCGUGAGUUAAAACGUCAAACUGUCAGUUUC
............(((------(((..........--....(((.......)))((((((((((--------------(...((....))..))))))))))).))))))... ( -26.60)
>DroSim_CAF1 75210 90 - 1
UAUUACUAUGUUGCU------GAUGUUGAUAUUG--UGUUGGUUGUUGCUGCCGUUUGACGUU--------------UGGCGCGUGAGUUAAAACGUCAAACUGUCAGUUUC
............(((------(((..........--....(((.......)))((((((((((--------------(...((....))..))))))))))).))))))... ( -26.60)
>DroEre_CAF1 84131 106 - 1
UAUUACUAUGUUGCU------GAUGUUGAUAUUGUGUGUUGGUUGUUGCUGCCGUUUGACGUUUGGCGUUUGCCGUUUGGCGCGUGAGUUAAAACGUCAAACUGUCAGUUUC
............(((------(((((..(..........((((.......)))).)..))((((((((((((((....)))((....))..))))))))))).))))))... ( -29.20)
>DroYak_CAF1 72636 104 - 1
UAUUACUAUGUUGCU------GAUGUUGAUAUUG--UGUUGGUUGUUGCUGCCGUUUGACGUUUAGCGUUUGGCGUUUGGCGCGUGAGUUAAAACGUCAAACUGUCAGCUUC
............(((------((((((((...((--(..((((.......))))....))).)))))(((((((((((...((....))..))))))))))).))))))... ( -32.30)
>DroAna_CAF1 85372 92 - 1
UAUUGGGGUAUGGGGUAUUGGGGUAUGGCCAUUG--UU----UCGUAGCUGCCGUUUGACGUU--------------UGGCGCGUGAGUUAAAACGUCAAACUGUCAGUUCC
....(((.(((((..((.(((.......))).))--..----)))))(((((.((((((((((--------------(...((....))..))))))))))).).))))))) ( -31.00)
>consensus
UAUUACUAUGUUGCU______GAUGUUGAUAUUG__UGUUGGUUGUUGCUGCCGUUUGACGUU______________UGGCGCGUGAGUUAAAACGUCAAACUGUCAGUUUC
...............................................(((((.((((((((((..................((....))...)))))))))).).))))... (-17.19 = -17.05 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:07 2006