Locus 6724

Sequence ID X_DroMel_CAF1
Location 16,748,470 – 16,748,616
Length 146
Max. P 0.953950
window10976 window10977

overview

Window 6

Location 16,748,470 – 16,748,579
Length 109
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 76.06
Mean single sequence MFE -12.00
Consensus MFE -10.64
Energy contribution -9.07
Covariance contribution -1.56
Combinations/Pair 1.30
Mean z-score -1.53
Structure conservation index 0.89
SVM decision value 1.44
SVM RNA-class probability 0.953950
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16748470 109 + 22224390
AUAGCACUGAGCAUAAACCAAUACCCUAUAUAA--------ACUUAUAUAACAUGCUAAAUUAUAUAACAGUAAGUGUUUCGAAAACAAGCACACUUAUAUAACAUACCCCAAUAUU
.(((((.((.(......)))......((((((.--------...))))))...)))))..(((((((..(((..((((((.......)))))))))))))))).............. ( -11.10)
>DroSec_CAF1 35724 103 + 1
------UUAAGCAUAGGCCAAUCCCCUAUAUAA--------ACUUAUAUAACAUGCUAAAUUAUAUAACAGUAAGUGUUUAGAAAACAAACACACUUAUAUAACAUACCUAAAUAUU
------...(((((.((......)).((((((.--------...))))))..)))))...(((((((..(((..((((((.......)))))))))))))))).............. ( -13.10)
>DroSim_CAF1 34072 103 + 1
------UUCAGCAUAGGCCAAUUCCCUAUAUAA--------ACUUAUAUAACAUGCUAAUUUAUAUAACAGUAAGUGUUUAGAAAACAAACACACUUAUAUAACAUACCCAAAUAUU
------...(((((.((.......))((((((.--------...))))))..)))))...(((((((..(((..((((((.......)))))))))))))))).............. ( -12.90)
>DroEre_CAF1 27420 104 + 1
------UUCAAUAUAGU-------ACUGCAUAAACCGAAAUCCUUGUGUGAGAUAUACAAUUAUAUAUUAGUAUGUGUUUAGAAAAGAAAUACACUUAUAUAACAUAUCCCAAUAUU
------....(((((((-------(((((((((..........))))))..((((((......)))))))))))((((((.......))))))...)))))................ ( -10.90)
>consensus
______UUCAGCAUAGGCCAAU_CCCUAUAUAA________ACUUAUAUAACAUGCUAAAUUAUAUAACAGUAAGUGUUUAGAAAACAAACACACUUAUAUAACAUACCCAAAUAUU
.........(((((.((.......))(((((((..........)))))))..)))))...(((((((..(((..((((((.......)))))))))))))))).............. (-10.64 =  -9.07 +  -1.56)

alignment

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secondary structure

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dotplot

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Window 7

Location 16,748,503 – 16,748,616
Length 113
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 85.59
Mean single sequence MFE -14.73
Consensus MFE -11.51
Energy contribution -11.20
Covariance contribution -0.31
Combinations/Pair 1.13
Mean z-score -2.11
Structure conservation index 0.78
SVM decision value 1.07
SVM RNA-class probability 0.910487
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16748503 113 + 22224390
-ACUUAUAUAACAUGCUAAAUUAUAUAACAGUAAGUGUUUCGAAAAC--AAGCACACUUAUAUAACAUACCCCA-AUAUUGCAUUUCAUUGAAAACAAUCAAAGCACUUACACAC---UG
-..((((((((.........))))))))..((((((((((.((....--..(((....................-....))).((((...))))....)).))))))))))....---.. ( -14.96)
>DroSim_CAF1 34099 113 + 1
-ACUUAUAUAACAUGCUAAUUUAUAUAACAGUAAGUGUUUAGAAAAC--AAACACACUUAUAUAACAUACCCAA-AUAUUGCAUUUCAUUGAAAACAAUCAAAGCACUUACACAC---UG
-..((((((((.((....))))))))))..((((((((((.((((.(--((.......................-...)))..))))..(((......)))))))))))))....---.. ( -13.47)
>DroEre_CAF1 27447 113 + 1
UCCUUGUGUGAGAUAUACAAUUAUAUAUUAGUAUGUGUUUAGAAAAG--AAAUACACUUAUAUAACAUAUCCCA-AUAUUGCAUUUUCUUGA-AACAAUCAAAGCACUUACACAC---AG
....(((((((((((((((((.....))).))))))((((((((((.--.((((.....((((...))))....-.))))...))))))..)-)))..........)))))))).---.. ( -17.60)
>DroYak_CAF1 27254 120 + 1
CCCUUAUAUAACAUAAAAAAUUAUAUAAUAGUAAGUGUUUAGAAAACAAAAAUACACUUAUAUAACAUAUCCCAAAUAUUGCAUUUCCUUGAAAACAAUCAAAGCACUUACACACUACUG
...((((((((.........))))))))..((((((((((.((.......................((((.....))))..((......)).......)).))))))))))......... ( -12.90)
>consensus
_ACUUAUAUAACAUACAAAAUUAUAUAACAGUAAGUGUUUAGAAAAC__AAACACACUUAUAUAACAUACCCCA_AUAUUGCAUUUCAUUGAAAACAAUCAAAGCACUUACACAC___UG
....(((((((.........)))))))...((((((((((.((......................((............))((......)).......)).))))))))))......... (-11.51 = -11.20 +  -0.31)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:20:55 2006