Locus 2662

Sequence ID 2L_DroMel_CAF1
Location 7,467,201 – 7,467,313
Length 112
Max. P 0.851148
window4240 window4241

overview

Window 0

Location 7,467,201 – 7,467,313
Length 112
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 95.04
Mean single sequence MFE -32.55
Consensus MFE -27.56
Energy contribution -27.67
Covariance contribution 0.11
Combinations/Pair 1.07
Mean z-score -2.02
Structure conservation index 0.85
SVM decision value 0.79
SVM RNA-class probability 0.851148
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7467201 112 + 22407834
AUUACGCAAUAUGUUGGCAGUGCAAAUGAGUGGAAAAUCUAAUUUUCCAGCAGCAUGCAAAAAUUCGG-GUAGUAAUUGCCAAAAUGUCAGGCUGCGCCAGCUGUAAGCUAC------U
.....((.....((((((............((((((((...))))))))(((((.((.(...(((..(-((((...)))))..))).))).))))))))))).....))...------. ( -31.50)
>DroSec_CAF1 62693 112 + 1
AUUACGCAAUAUGUUGGCAGUGCAAAUGAGUGGAAAAUCUAAUUUUCCAGCAGCAUGCAAAAAUUCGG-GUAGUAAUUGCCAAAAUGUCAGGCUGCGCCAGCUGUAAGCUAC------U
.....((.....((((((............((((((((...))))))))(((((.((.(...(((..(-((((...)))))..))).))).))))))))))).....))...------. ( -31.50)
>DroSim_CAF1 65161 112 + 1
AUUACGCAAUAUGUUGGCAGUGCAAAUGAGUGGAAAAUCUAAUUUUCCAGCAGCAUGCAAAAAUUCGG-GUAGUAAUUGCCAAAAUGUCAGGCUGCGCCAGCUGUAAGCUAC------U
.....((.....((((((............((((((((...))))))))(((((.((.(...(((..(-((((...)))))..))).))).))))))))))).....))...------. ( -31.50)
>DroEre_CAF1 66357 118 + 1
AUUACGCAAUAUGUUGGCAGUGCAAAUGAGUGGAAAAUCUAAUUUUCCAGCAGCAUGCAAAAAUUCGG-GCAGUAAUUGCCAAAAUGUCAGGCUGCGCCAGCUGUGAGCUACUGCUACU
....((((....((((((............((((((((...))))))))(((((.((.(...(((..(-((((...)))))..))).))).)))))))))))))))(((....)))... ( -36.40)
>DroYak_CAF1 65812 112 + 1
AUUACGCAAUAUGUCGGCAGUGCAAAUGAGUGGAAAAUCUAAUUUUCCAGCAGCAUGCAAAAAUUCGG-GCAGUAAUUGCCAAAAUGUCAGGCUGCGCCAGCUGUGAGCUAC------U
.....((.(((.((.(((............((((((((...))))))))(((((.((.(...(((..(-((((...)))))..))).))).)))))))).)))))..))...------. ( -30.40)
>DroAna_CAF1 63871 113 + 1
AUUACGCAAUAUGUUGGCAGUGCAAAUGAGUGGAAAAUCUAAUUUUCCAGCGCCAUGCUAAUAUUCGGGGCAGUAAUUGCCAAAAUGUCAGGCUGCGCCAGAUGUUAGCUAC------U
.....(((...((....)).)))..(((.(((((((((...)))))))).)..)))((((((((..((.(((((...((.(.....).)).))))).))..))))))))...------. ( -34.00)
>consensus
AUUACGCAAUAUGUUGGCAGUGCAAAUGAGUGGAAAAUCUAAUUUUCCAGCAGCAUGCAAAAAUUCGG_GCAGUAAUUGCCAAAAUGUCAGGCUGCGCCAGCUGUAAGCUAC______U
.....((.....((((((..((((..((..((((((((...)))))))).))...))))..........(((((...((.(.....).)).))))))))))).....)).......... (-27.56 = -27.67 +   0.11)

alignment

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secondary structure

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dotplot

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Window 1

Location 7,467,201 – 7,467,313
Length 112
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 95.04
Mean single sequence MFE -28.58
Consensus MFE -24.61
Energy contribution -24.97
Covariance contribution 0.36
Combinations/Pair 1.04
Mean z-score -1.53
Structure conservation index 0.86
SVM decision value 0.24
SVM RNA-class probability 0.649045
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7467201 112 - 22407834
A------GUAGCUUACAGCUGGCGCAGCCUGACAUUUUGGCAAUUACUAC-CCGAAUUUUUGCAUGCUGCUGGAAAAUUAGAUUUUCCACUCAUUUGCACUGCCAACAUAUUGCGUAAU
.------(((((.....))(((((((((.((.((.(((((..........-)))))....)))).)))))((((((((...))))))))............))))......)))..... ( -27.00)
>DroSec_CAF1 62693 112 - 1
A------GUAGCUUACAGCUGGCGCAGCCUGACAUUUUGGCAAUUACUAC-CCGAAUUUUUGCAUGCUGCUGGAAAAUUAGAUUUUCCACUCAUUUGCACUGCCAACAUAUUGCGUAAU
.------(((((.....))(((((((((.((.((.(((((..........-)))))....)))).)))))((((((((...))))))))............))))......)))..... ( -27.00)
>DroSim_CAF1 65161 112 - 1
A------GUAGCUUACAGCUGGCGCAGCCUGACAUUUUGGCAAUUACUAC-CCGAAUUUUUGCAUGCUGCUGGAAAAUUAGAUUUUCCACUCAUUUGCACUGCCAACAUAUUGCGUAAU
.------(((((.....))(((((((((.((.((.(((((..........-)))))....)))).)))))((((((((...))))))))............))))......)))..... ( -27.00)
>DroEre_CAF1 66357 118 - 1
AGUAGCAGUAGCUCACAGCUGGCGCAGCCUGACAUUUUGGCAAUUACUGC-CCGAAUUUUUGCAUGCUGCUGGAAAAUUAGAUUUUCCACUCAUUUGCACUGCCAACAUAUUGCGUAAU
....((((((((.....))(((((((((.((..((((.((((.....)))-).)))).....)).)))))((((((((...))))))))............))))...))))))..... ( -35.50)
>DroYak_CAF1 65812 112 - 1
A------GUAGCUCACAGCUGGCGCAGCCUGACAUUUUGGCAAUUACUGC-CCGAAUUUUUGCAUGCUGCUGGAAAAUUAGAUUUUCCACUCAUUUGCACUGCCGACAUAUUGCGUAAU
.------(((((.....))(((((((((.((..((((.((((.....)))-).)))).....)).)))))((((((((...))))))))............))))......)))..... ( -29.40)
>DroAna_CAF1 63871 113 - 1
A------GUAGCUAACAUCUGGCGCAGCCUGACAUUUUGGCAAUUACUGCCCCGAAUAUUAGCAUGGCGCUGGAAAAUUAGAUUUUCCACUCAUUUGCACUGCCAACAUAUUGCGUAAU
.------((((((((.((.(((.((((((.........)))......))).))).)).))))).((((((((((((((...)))))))).......))...))))......)))..... ( -25.61)
>consensus
A______GUAGCUUACAGCUGGCGCAGCCUGACAUUUUGGCAAUUACUAC_CCGAAUUUUUGCAUGCUGCUGGAAAAUUAGAUUUUCCACUCAUUUGCACUGCCAACAUAUUGCGUAAU
..........((.......(((((((((.((.((.(((((...........)))))....)))).)))))((((((((...))))))))............)))).......))..... (-24.61 = -24.97 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:10 2006