Locus 2955

Sequence ID 2L_DroMel_CAF1
Location 8,494,224 – 8,494,376
Length 152
Max. P 0.750082
window4688 window4689

overview

Window 8

Location 8,494,224 – 8,494,336
Length 112
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 91.58
Mean single sequence MFE -34.96
Consensus MFE -26.74
Energy contribution -27.94
Covariance contribution 1.20
Combinations/Pair 1.00
Mean z-score -1.82
Structure conservation index 0.76
SVM decision value 0.47
SVM RNA-class probability 0.750082
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8494224 112 - 22407834
AGUGAAGCAGGAAGG--G-GGGGAGAAAACAGGAAGGGUAGCCCAGAUUGGGACUGCUUCGUUGAGCAGUUAAUGAAUCACUUAAUGGAAAAACCUGGACGCCACUCGACUUCCG--
.........(((((.--.-(((..(....((((....(((((((.....))).))))(((((((((..(((....)))..)))))))))....))))....)..)))..))))).-- ( -36.60)
>DroSec_CAF1 3398 114 - 1
AGUGGAGCAGGAAGGAGG-GGGGAGAGAACAGGAAGGGGAGCCCAGAUUGGGACUGCUUCGUUGAGCAGUUAAUGAAUCACUUAAUGGAAAAACCUGGUCGCCACUCGACUUCCG--
.........(((((..((-(.((...((.((((..(((...))).((((..((((((((....))))))))....))))..............)))).)).)).)))..))))).-- ( -38.80)
>DroSim_CAF1 3416 114 - 1
AGUGGGGCAGGAAGGAGG-GGGGAGAGAACAGGAAGGGUAGCCCAGAUUGGGACUGCUUCGUUGAGCAGUUAAUGAAUCACUUAAUGGAAAAACCUGGUCGCCACUCGACUUCCG--
.........(((((..((-(.((...((.((((....(((((((.....))).))))(((((((((..(((....)))..)))))))))....)))).)).)).)))..))))).-- ( -40.50)
>DroEre_CAF1 3025 109 - 1
AGUUGAGCAGGAAGGUCG------GAAAACAGGAAGGGUAACCCAGAUUGGGACUGCUUCGUUGAGCAGUUAAUGAAUCACUUAAUGGAAAAACCUGGUCGCCACUCGACUUCCG--
(((((((......((.((------(....((((..(((...))).((((..((((((((....))))))))....))))..............)))).))))).)))))))....-- ( -30.60)
>DroYak_CAF1 3405 117 - 1
AUUGAAGCAGAAAGGAUGGGGGAAGAAAACAGGAAGGGUAACCCAGAUUGGGAAUGCUUCGUUGAGCAGUUAAUGAAUCACUUAAUGGAAAAACCUGGUCGCCACUCGACUUCCGUU
..............((((((((..((.........(((...))).(((..((.....(((((((((..(((....)))..)))))))))....))..))).....))..)))))))) ( -28.30)
>consensus
AGUGGAGCAGGAAGGAGG_GGGGAGAAAACAGGAAGGGUAGCCCAGAUUGGGACUGCUUCGUUGAGCAGUUAAUGAAUCACUUAAUGGAAAAACCUGGUCGCCACUCGACUUCCG__
.........(((((.......((.((...((((..(((...))).((((..((((((((....))))))))....))))..............)))).)).))......)))))... (-26.74 = -27.94 +   1.20)

alignment

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secondary structure

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dotplot

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Window 9

Location 8,494,261 – 8,494,376
Length 115
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 90.37
Mean single sequence MFE -23.05
Consensus MFE -17.84
Energy contribution -18.36
Covariance contribution 0.52
Combinations/Pair 1.11
Mean z-score -1.52
Structure conservation index 0.77
SVM decision value 0.10
SVM RNA-class probability 0.582231
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8494261 115 + 22407834
AUUCAUUAACUGCUCAACGAAGCAGUCCCAAUCUGGGCUACCCUUCCUGUUUUCUCCCC-C--CCUUCCUGCUUCACUCAUUUGGGUUGGAAACUAGCUAGCAGGGCCAAUAUAACCU
........((((((......)))))).........((((...((..(((.(((((..((-(--....................)))..))))).)))..))...)))).......... ( -23.85)
>DroSec_CAF1 3435 117 + 1
AUUCAUUAACUGCUCAACGAAGCAGUCCCAAUCUGGGCUCCCCUUCCUGUUCUCUCCCC-CCUCCUUCCUGCUCCACUCAUUUGCGUUGGAAACUAGCUAGCAGGGCCAAUAUAACCU
........((((((......))))))(((.....)))......................-......(((((((..........((...(....)..)).)))))))............ ( -21.70)
>DroSim_CAF1 3453 117 + 1
AUUCAUUAACUGCUCAACGAAGCAGUCCCAAUCUGGGCUACCCUUCCUGUUCUCUCCCC-CCUCCUUCCUGCCCCACUCAUUUGCGUUGGAAACUAGCUAGCAGGACCAAUAUAACCU
........((((((......))))))(((.....)))......................-......((((((...........((...(....)..))..))))))............ ( -21.02)
>DroEre_CAF1 3062 112 + 1
AUUCAUUAACUGCUCAACGAAGCAGUCCCAAUCUGGGUUACCCUUCCUGUUUUC------CGACCUUCCUGCUCAACUCAUUUGCGUUGGAAACUAGCCAGCAGCGGCAAUGUAACCU
........((((((......))))))........(((((((.........((((------((((......((...........))))))))))...(((......)))...))))))) ( -26.20)
>DroYak_CAF1 3444 118 + 1
AUUCAUUAACUGCUCAACGAAGCAUUCCCAAUCUGGGUUACCCUUCCUGUUUUCUUCCCCCAUCCUUUCUGCUUCAAUCAUUUGCGUUGGCAACUAGCUAGCAGGGCCAAUAUAACCU
...........((((...((((((.........((((.....................)))).......))))))..........((((((.....)))))).))))........... ( -22.49)
>consensus
AUUCAUUAACUGCUCAACGAAGCAGUCCCAAUCUGGGCUACCCUUCCUGUUUUCUCCCC_CCUCCUUCCUGCUCCACUCAUUUGCGUUGGAAACUAGCUAGCAGGGCCAAUAUAACCU
........((((((......))))))(((.....))).............................(((((((..........((...(....)..)).)))))))............ (-17.84 = -18.36 +   0.52)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:26 2006