Locus 9470

Sequence ID 3R_DroMel_CAF1
Location 25,060,297 – 25,060,437
Length 140
Max. P 0.903870
window15168 window15169

overview

Window 8

Location 25,060,297 – 25,060,399
Length 102
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.40
Mean single sequence MFE -22.82
Consensus MFE -14.02
Energy contribution -15.33
Covariance contribution 1.31
Combinations/Pair 1.13
Mean z-score -2.88
Structure conservation index 0.61
SVM decision value 1.03
SVM RNA-class probability 0.903870
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25060297 102 + 27905053
----AUGGAAUCUGUAAUAAUUACAGCAUCAGUUAUACUUAUAGUGACUGGAA--------UGGUUUAUUGU----AAACAAUGAGCUAUACCAACGCA-AACACACAAAU-CUAUAUAC
----(((((...((((.....))))((.((((((((.......)))))))).(--------((((((((((.----...)))))))))))......)).-..........)-)))).... ( -23.50)
>DroSec_CAF1 6925 102 + 1
----AUGGAAUCUGUAAUAAUUACAGCAUCAGUUAUACUUAUAGUGACUGGAA--------UGGUUUAUUGU----AAACAAUAAGCUAUACCCACGCA-AACACACAAAU-CUAUAUAC
----(((((...((((.....))))((.((((((((.......)))))))).(--------((((((((((.----...)))))))))))......)).-..........)-)))).... ( -23.40)
>DroSim_CAF1 4274 102 + 1
----AUGGAAUCUGUAAUAAUUACAGCAUCAGUUAUACUUAUAGUGACUGGAA--------UGGUUUAUUGU----AAACAAUGAGCUAUACCCACGCA-AACACACAAAU-CUAUAUAC
----(((((...((((.....))))((.((((((((.......)))))))).(--------((((((((((.----...)))))))))))......)).-..........)-)))).... ( -23.50)
>DroEre_CAF1 6881 103 + 1
----AUGGAAUCUGUAAUAAUUACAGCAUCAGUUAUACUUAUAGUGACUGGAA--------UGGUUUAUUGU----AAACAAUGAGCUGUACCCACGUAAAACACACAAAU-CUAUAUAC
----(((((...(((.....((((....((((((((.......)))))))).(--------((((((((((.----...)))))))))))......)))).....)))..)-)))).... ( -21.60)
>DroYak_CAF1 4329 103 + 1
----AUGGAAUCUGUAAUAAUUACAGCAUCAGUUAUACUUAUAGUGACUGGAA--------UGGUUUAUUGU----AAACAAUGAGCUAUACCCACGUAAAACACACAAAU-CUAUAUAC
----(((((...(((.....((((....((((((((.......)))))))).(--------((((((((((.----...)))))))))))......)))).....)))..)-)))).... ( -22.60)
>DroAna_CAF1 4214 112 + 1
UCCGGCAGGAUCUGUAAUAAUUACAGUGUCGGAUAUUCUACAAUCCACUUGCAUUCAAACAUAUUUAAUUGGAUUAACACAAUGUGUC-------CGAU-AAAAAAUAAAUGAUAUAUAC
(((....))).(((((.....)))))((((((((((.....((((((.(((.((........)).))).))))))........)))))-------))))-)................... ( -22.32)
>consensus
____AUGGAAUCUGUAAUAAUUACAGCAUCAGUUAUACUUAUAGUGACUGGAA________UGGUUUAUUGU____AAACAAUGAGCUAUACCCACGCA_AACACACAAAU_CUAUAUAC
...........(((((.....)))))..((((((((.......))))))))..........((((((((((........))))))))))............................... (-14.02 = -15.33 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 25,060,333 – 25,060,437
Length 104
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 83.05
Mean single sequence MFE -21.47
Consensus MFE -13.65
Energy contribution -14.79
Covariance contribution 1.14
Combinations/Pair 1.13
Mean z-score -1.93
Structure conservation index 0.64
SVM decision value -0.03
SVM RNA-class probability 0.515874
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25060333 104 + 27905053
AUAGUGACUGGAA--------UGGUUUAUUGU----AAACAAUGAGCUAUACCAACGCA-AACACACAAAU-CUAUAUACGAAGUGUUGAAUAGUUGUUAAACUCAUGACACACCUCA
...(((..(((.(--------((((((((((.----...))))))))))).))).))).-...........-........((.((((...((((((....)))).))...)))).)). ( -24.20)
>DroSec_CAF1 6961 104 + 1
AUAGUGACUGGAA--------UGGUUUAUUGU----AAACAAUAAGCUAUACCCACGCA-AACACACAAAU-CUAUAUACGAAGUGUUGAAUAGUUGUUAAACUCAUGACACACCUCA
...(((...((.(--------((((((((((.----...))))))))))).))..))).-...........-........((.((((...((((((....)))).))...)))).)). ( -22.70)
>DroSim_CAF1 4310 104 + 1
AUAGUGACUGGAA--------UGGUUUAUUGU----AAACAAUGAGCUAUACCCACGCA-AACACACAAAU-CUAUAUACGAAGUGUUGAAUAGUUGUUAAACUCAUGACACACCUCA
...(((...((.(--------((((((((((.----...))))))))))).))..))).-...........-........((.((((...((((((....)))).))...)))).)). ( -22.80)
>DroEre_CAF1 6917 105 + 1
AUAGUGACUGGAA--------UGGUUUAUUGU----AAACAAUGAGCUGUACCCACGUAAAACACACAAAU-CUAUAUACGAAGUGUUGAAUAGUUGUUAAACUCAUGACACACCUCA
...(((...((.(--------((((((((((.----...))))))))))).)))))...............-........((.((((...((((((....)))).))...)))).)). ( -21.30)
>DroYak_CAF1 4365 105 + 1
AUAGUGACUGGAA--------UGGUUUAUUGU----AAACAAUGAGCUAUACCCACGUAAAACACACAAAU-CUAUAUACGAAGUGUUGAAUAGUUGUUAAACUCAUGACACACCUCA
...(((...((.(--------((((((((((.----...))))))))))).)))))...............-........((.((((...((((((....)))).))...)))).)). ( -22.30)
>DroAna_CAF1 4254 109 + 1
CAAUCCACUUGCAUUCAAACAUAUUUAAUUGGAUUAACACAAUGUGUC-------CGAU-AAAAAAUAAAUGAUAUAUACAAAGUGUUGAAUAGUUGAUA-GCUCAUGACACGGCAGU
........((((..(((.......(((((((..(((((((.(((((((-------....-...........))))))).....))))))).)))))))..-.....)))....)))). ( -15.50)
>consensus
AUAGUGACUGGAA________UGGUUUAUUGU____AAACAAUGAGCUAUACCCACGCA_AACACACAAAU_CUAUAUACGAAGUGUUGAAUAGUUGUUAAACUCAUGACACACCUCA
...(((...............((((((((((........))))))))))...............)))................((((((...((((....))))..))))))...... (-13.65 = -14.79 +   1.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:35:25 2006