Locus 3007

Sequence ID 3R_DroMel_CAF1
Location 8,053,841 – 8,053,939
Length 98
Max. P 0.989569
window4840 window4841

overview

Window 0

Location 8,053,841 – 8,053,939
Length 98
Sequences 3
Columns 98
Reading direction forward
Mean pairwise identity 83.57
Mean single sequence MFE -37.17
Consensus MFE -33.44
Energy contribution -34.17
Covariance contribution 0.73
Combinations/Pair 1.06
Mean z-score -2.34
Structure conservation index 0.90
SVM decision value 1.82
SVM RNA-class probability 0.978916
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8053841 98 + 27905053
UGGAUGGCUCUGCUUCUGGGCCAUGUUCGCCAGUUGGUCAGUUAGCCAGUUCGCCAGCCAACUUCUGUAGAAUUGUGCGUGUGGCCCAGAAGAACAGG
.........((((((((((((((..(..(((....)))......((((((((..(((.......)))..)))))).)))..)))))))))))..))). ( -37.90)
>DroEre_CAF1 125252 82 + 1
UGGAGAGCCCUGCUUCUGGGCCAUGUUCGCCAG----------------UUGGCCAGCCAACUUCUGUAGAAUUGUGCGUGUGGCCCAGAAGAACUGG
........((..((((((((((((...((((((----------------((((....)))))(((....))).)).))).))))))))))))....)) ( -35.70)
>DroYak_CAF1 125149 90 + 1
UGGAUGGCCCCGCUUCUGGGCCGUGUUCGCCAGUUGA--------CCAGUUGGCCAGCCAACUUCUGUAGAAUUGUGCGUGUGGCCCAGAAGAACUGG
.((......)).(((((((((((....((((((((.(--------(.((((((....))))))...))..))))).)))..)))))))))))...... ( -37.90)
>consensus
UGGAUGGCCCUGCUUCUGGGCCAUGUUCGCCAGUUG_________CCAGUUGGCCAGCCAACUUCUGUAGAAUUGUGCGUGUGGCCCAGAAGAACUGG
.......((...(((((((((((..(..((((((((((......))))))))))..(((((.(((....)))))).)))..)))))))))))....)) (-33.44 = -34.17 +   0.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 8,053,841 – 8,053,939
Length 98
Sequences 3
Columns 98
Reading direction reverse
Mean pairwise identity 83.57
Mean single sequence MFE -35.77
Consensus MFE -29.33
Energy contribution -29.37
Covariance contribution 0.03
Combinations/Pair 1.10
Mean z-score -3.29
Structure conservation index 0.82
SVM decision value 2.17
SVM RNA-class probability 0.989569
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8053841 98 - 27905053
CCUGUUCUUCUGGGCCACACGCACAAUUCUACAGAAGUUGGCUGGCGAACUGGCUAACUGACCAACUGGCGAACAUGGCCCAGAAGCAGAGCCAUCCA
.(((..(((((((((((..(((.((..((....))(((((((..(....)..))))))).......)))))....))))))))))))))......... ( -38.20)
>DroEre_CAF1 125252 82 - 1
CCAGUUCUUCUGGGCCACACGCACAAUUCUACAGAAGUUGGCUGGCCAA----------------CUGGCGAACAUGGCCCAGAAGCAGGGCUCUCCA
((....(((((((((((..(((.((.(((....)))(((((....))))----------------))))))....)))))))))))...))....... ( -33.30)
>DroYak_CAF1 125149 90 - 1
CCAGUUCUUCUGGGCCACACGCACAAUUCUACAGAAGUUGGCUGGCCAACUGG--------UCAACUGGCGAACACGGCCCAGAAGCGGGGCCAUCCA
((....((((((((((...(((.((.(((....)))((((((..(....)..)--------)))))))))).....))))))))))..))........ ( -35.80)
>consensus
CCAGUUCUUCUGGGCCACACGCACAAUUCUACAGAAGUUGGCUGGCCAACUGG_________CAACUGGCGAACAUGGCCCAGAAGCAGGGCCAUCCA
...(((((((((((((.((.((.((((((....).)))))))))((((..(((........)))..))))......))))))))...)))))...... (-29.33 = -29.37 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:02 2006