Locus 7971

Sequence ID 3L_DroMel_CAF1
Location 21,101,392 – 21,101,551
Length 159
Max. P 0.963506
window13012 window13013

overview

Window 2

Location 21,101,392 – 21,101,512
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.09
Mean single sequence MFE -33.75
Consensus MFE -28.59
Energy contribution -28.99
Covariance contribution 0.40
Combinations/Pair 1.06
Mean z-score -1.87
Structure conservation index 0.85
SVM decision value 1.50
SVM RNA-class probability 0.959047
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21101392 120 - 23771897
CCUGAUCUGGCGGAUUUCAAUGGCUUUGGCUGCCUUAUAAGGCACCGAACACAAAAUCCAUUUAAGCGGAGUGUCAUAAUAUAAAACCUCGGAAUGACUCACUACUGCUCGCCAGCCAAG
.((...(((((((((((...((..(((((.(((((....))))))))))..)))))))).....(((((((((((((................)))))..))).))))).)))))...)) ( -37.49)
>DroSec_CAF1 151641 117 - 1
CCUGAUCUGGCGGAUUUCAAUGGCUUUGGCUGCCUUAUAAGGCACCGAACACAAAAUCCAUUUAAGCGGAGUGUCAUAAUAUAAAACCUCGGAGUGACUCAC---UGGUCGCCAGCCAAG
.((...(((((((((((...((..(((((.(((((....))))))))))..)))))))).......(((.(.(((((................))))).).)---))...)))))...)) ( -34.19)
>DroSim_CAF1 59185 117 - 1
CCUGAUCUGGCGGACUUCAAUGGCUUUGGCUGCCUUAUAAGGCACCGAACACAAAAUCCAUUUAAGCGGAGUGUCAUAAUAUAAAACCUCGGAAUGACUCAC---UGCUCGCCAGCCAAG
.((...((((((((.((...((..(((((.(((((....))))))))))..)))).))).....(((((.(.(((((................))))).).)---)))).)))))...)) ( -34.09)
>DroEre_CAF1 73940 117 - 1
CCUGAUCAGGCGGAUUUUAAUGGCUUUGGCUGCCUUAUAAGGUACCGAAAACAAUAUCCAUUUAAGCGGAGUGUCAUAAUAUAAAACCUCGGAAUGACUCAC---UGUUCGCCAGCCAAG
........(((((((.....((..(((((.(((((....))))))))))..))..)))).....(((((.(.(((((................))))).).)---)))).)))....... ( -29.09)
>DroYak_CAF1 45939 117 - 1
CCUGAUCUGGCGGAUUGUAAUGGCUUUGGCUGCCUUAUAAGGUACCGAAAACAAAAUCCAUUUAAGCGGAGUGUCAUAAUAUAAAACCUCGGAAUGACUCAC---UGUUCGCCAGCCAAG
.((...((((((((((....((..(((((.(((((....))))))))))..)).))))).....(((((.(.(((((................))))).).)---)))).)))))...)) ( -33.89)
>consensus
CCUGAUCUGGCGGAUUUCAAUGGCUUUGGCUGCCUUAUAAGGCACCGAACACAAAAUCCAUUUAAGCGGAGUGUCAUAAUAUAAAACCUCGGAAUGACUCAC___UGCUCGCCAGCCAAG
.((...(((((((((((...((..(((((.(((((....))))))))))..))))))))...........(.(((((................))))).)..........)))))...)) (-28.59 = -28.99 +   0.40)

alignment

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secondary structure

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dotplot

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Window 3

Location 21,101,432 – 21,101,551
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.48
Mean single sequence MFE -37.48
Consensus MFE -34.56
Energy contribution -34.28
Covariance contribution -0.28
Combinations/Pair 1.06
Mean z-score -1.54
Structure conservation index 0.92
SVM decision value 1.55
SVM RNA-class probability 0.963506
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21101432 119 - 23771897
UGCCCCGC-UGGCUAAUGCGAAUUGUGGAUAUGGACUUGGCCUGAUCUGGCGGAUUUCAAUGGCUUUGGCUGCCUUAUAAGGCACCGAACACAAAAUCCAUUUAAGCGGAGUGUCAUAAU
.((.((((-(.((....)).....((((((.((((.((.(((......))).)).)))).((..(((((.(((((....))))))))))..))..))))))...))))).))........ ( -39.40)
>DroSec_CAF1 151678 119 - 1
UGCCCCGC-UGGCUAAUGCGAAUUGUGGAUAUGGACUUGGCCUGAUCUGGCGGAUUUCAAUGGCUUUGGCUGCCUUAUAAGGCACCGAACACAAAAUCCAUUUAAGCGGAGUGUCAUAAU
.((.((((-(.((....)).....((((((.((((.((.(((......))).)).)))).((..(((((.(((((....))))))))))..))..))))))...))))).))........ ( -39.40)
>DroSim_CAF1 59222 119 - 1
UGCCCCGC-UGGCUAAUGCGAAUUGUGGAUAUGGACUUGGCCUGAUCUGGCGGACUUCAAUGGCUUUGGCUGCCUUAUAAGGCACCGAACACAAAAUCCAUUUAAGCGGAGUGUCAUAAU
.((.((((-(.((....)).....((((((.((((.((.(((......))).)).)))).((..(((((.(((((....))))))))))..))..))))))...))))).))........ ( -39.40)
>DroEre_CAF1 73977 119 - 1
UGCCCCAC-UGGCUAAUGCGAAUUGUGGAUAUGGACUUGGCCUGAUCAGGCGGAUUUUAAUGGCUUUGGCUGCCUUAUAAGGUACCGAAAACAAUAUCCAUUUAAGCGGAGUGUCAUAAU
........-((((...(((.....(((((((((((.((.((((....)))).)).)))..((..(((((.(((((....))))))))))..))))))))))....)))....)))).... ( -35.10)
>DroYak_CAF1 45976 120 - 1
UACCCCGUGUGGCUAAUGCGAGUUGUGGAUAUGGACUUGGCCUGAUCUGGCGGAUUGUAAUGGCUUUGGCUGCCUUAUAAGGUACCGAAAACAAAAUCCAUUUAAGCGGAGUGUCAUAAU
.......((((((...(((.....((((((.((.(.((.(((......))).)).).)).((..(((((.(((((....))))))))))..))..))))))....)))....)))))).. ( -34.10)
>consensus
UGCCCCGC_UGGCUAAUGCGAAUUGUGGAUAUGGACUUGGCCUGAUCUGGCGGAUUUCAAUGGCUUUGGCUGCCUUAUAAGGCACCGAACACAAAAUCCAUUUAAGCGGAGUGUCAUAAU
.........((((...(((.....((((((.((((.((.(((......))).)).)))).((..(((((.(((((....))))))))))..))..))))))....)))....)))).... (-34.56 = -34.28 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:33 2006