Locus 2139

Sequence ID X_DroMel_CAF1
Location 5,802,300 – 5,802,413
Length 113
Max. P 0.961340
window3471 window3472

overview

Window 1

Location 5,802,300 – 5,802,413
Length 113
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 80.94
Mean single sequence MFE -43.57
Consensus MFE -26.70
Energy contribution -28.37
Covariance contribution 1.67
Combinations/Pair 1.17
Mean z-score -2.54
Structure conservation index 0.61
SVM decision value 0.91
SVM RNA-class probability 0.880738
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5802300 113 + 22224390
GUGAUUUGGCCGCCAAACGUGGUAUUGGCCUGGCCGAAAUGGAUGCCAUUGCAG-CUGAAAAUGGAAAGGAAGGAUUUCAGCUGAAGAUGGUGGCUCCACACCAGGCAUCCAUA
....((((((((((((........)))))..)))))))(((((((((....(((-((((((..............)))))))))....(((((......)))))))))))))). ( -50.44)
>DroSec_CAF1 7806 113 + 1
GUGAUUUGGCUGCCAAACGUGGUAUUGGCCUGGCCGAAAUGGAUGCCAUUGCGG-CUCCAAGUGGAAAGGAUGGUUUCCAGCUGGAGAUGAUGGCUCCACACCAGGCAUCCAUA
....((((((((((((........)))))..)))))))(((((((((....((.-(((((..((((((......))))))..))))).)).(((.......)))))))))))). ( -45.90)
>DroSim_CAF1 8305 113 + 1
GUGAUUUGGCCGCCAAACGUGGUAUUGGCCUGGCCGAAAUGGAUGCCAUUGCGG-CUCCAAGUGGAAAGGAUGGUUUCCAGCUGGAGAUGAUGGCUCCACACCAGGCAUCCAUA
....((((((((((((........)))))..)))))))(((((((((....((.-(((((..((((((......))))))..))))).)).(((.......)))))))))))). ( -47.60)
>DroEre_CAF1 7456 113 + 1
GCGAUUUGGCCGCCAAACGUGGUAUUAGCCUGGCCGAAAUGGAUGCCAUUGCAG-GGCCAACGGCACAGGGACGAUUCCAGCUGGAAAAGAUCGCUCCGCACCAGGCAUCCAUA
....(((((((((((....))))........)))))))(((((((((..(((..-.(((...)))...((..(((((((....)))....))))..)))))...))))))))). ( -43.40)
>DroYak_CAF1 8123 113 + 1
GUGAUUUGGCCGCCAAACGUGGUAUUAGCCUGGCCGAAAUGGAUGCCAUUGCAG-CGCCAACGGGUAAGGAACGAUUCCAGCUGAAUAUGUUGGCUCCACACCAGGCAUCCAUA
....(((((((((((....))))........)))))))(((((((((....(((-((((....)))..(((.....))).)))).......(((.......)))))))))))). ( -39.90)
>DroAna_CAF1 9036 107 + 1
GCGAUUUGGCCGCUCAGCGUGGCAUUAGCCUGUCCGAAAUGGAGGCUAUCUCCGGCGAUCACGGAUUCGGGA-------AUACGAAAAUGAGCGCCCCCUACCAGGCAUCCAUC
........(((((.....)))))....(((((........((((.....))))((((.(((....((((...-------...))))..))).))))......)))))....... ( -34.20)
>consensus
GUGAUUUGGCCGCCAAACGUGGUAUUAGCCUGGCCGAAAUGGAUGCCAUUGCAG_CGCCAACGGGAAAGGAAGGAUUCCAGCUGAAGAUGAUGGCUCCACACCAGGCAUCCAUA
....((((((((((((........)))))..)))))))(((((((((.....................(((.....)))(((((.......)))))........))))))))). (-26.70 = -28.37 +   1.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 5,802,300 – 5,802,413
Length 113
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 80.94
Mean single sequence MFE -44.60
Consensus MFE -27.42
Energy contribution -28.98
Covariance contribution 1.56
Combinations/Pair 1.21
Mean z-score -3.43
Structure conservation index 0.61
SVM decision value 1.53
SVM RNA-class probability 0.961340
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5802300 113 - 22224390
UAUGGAUGCCUGGUGUGGAGCCACCAUCUUCAGCUGAAAUCCUUCCUUUCCAUUUUCAG-CUGCAAUGGCAUCCAUUUCGGCCAGGCCAAUACCACGUUUGGCGGCCAAAUCAC
.((((((((((((((......)))))....(((((((((..............))))))-)))....)))))))))...((((..(((((........)))))))))....... ( -45.84)
>DroSec_CAF1 7806 113 - 1
UAUGGAUGCCUGGUGUGGAGCCAUCAUCUCCAGCUGGAAACCAUCCUUUCCACUUGGAG-CCGCAAUGGCAUCCAUUUCGGCCAGGCCAAUACCACGUUUGGCAGCCAAAUCAC
.(((((((((...(((((.........((((((.((((((......)))))).))))))-)))))..)))))))))...(((...(((((........))))).)))....... ( -47.40)
>DroSim_CAF1 8305 113 - 1
UAUGGAUGCCUGGUGUGGAGCCAUCAUCUCCAGCUGGAAACCAUCCUUUCCACUUGGAG-CCGCAAUGGCAUCCAUUUCGGCCAGGCCAAUACCACGUUUGGCGGCCAAAUCAC
.(((((((((...(((((.........((((((.((((((......)))))).))))))-)))))..)))))))))...((((..(((((........)))))))))....... ( -49.50)
>DroEre_CAF1 7456 113 - 1
UAUGGAUGCCUGGUGCGGAGCGAUCUUUUCCAGCUGGAAUCGUCCCUGUGCCGUUGGCC-CUGCAAUGGCAUCCAUUUCGGCCAGGCUAAUACCACGUUUGGCGGCCAAAUCGC
.(((((((((.((..(((..((((....(((....)))))))..)).)..))((((...-...)))))))))))))...((((..(((((........)))))))))....... ( -45.20)
>DroYak_CAF1 8123 113 - 1
UAUGGAUGCCUGGUGUGGAGCCAACAUAUUCAGCUGGAAUCGUUCCUUACCCGUUGGCG-CUGCAAUGGCAUCCAUUUCGGCCAGGCUAAUACCACGUUUGGCGGCCAAAUCAC
.(((((((((...((..(.((((((..........(((.....)))......)))))).-)..))..)))))))))...((((..(((((........)))))))))....... ( -44.09)
>DroAna_CAF1 9036 107 - 1
GAUGGAUGCCUGGUAGGGGGCGCUCAUUUUCGUAU-------UCCCGAAUCCGUGAUCGCCGGAGAUAGCCUCCAUUUCGGACAGGCUAAUGCCACGCUGAGCGGCCAAAUCGC
..(((.(((..(((..((((((.((((.((((...-------...))))...)))).)))).....((((((((.....)))..)))))...))..)))..))).)))...... ( -35.60)
>consensus
UAUGGAUGCCUGGUGUGGAGCCAUCAUCUCCAGCUGGAAUCCUUCCUUUCCAGUUGGAG_CUGCAAUGGCAUCCAUUUCGGCCAGGCCAAUACCACGUUUGGCGGCCAAAUCAC
.(((((((((...((((((((...........)))(((.....)))..............)))))..)))))))))...((((..(((((........)))))))))....... (-27.42 = -28.98 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:08 2006