Locus 5475

Sequence ID 2R_DroMel_CAF1
Location 17,618,147 – 17,618,261
Length 114
Max. P 0.795919
window8735 window8736

overview

Window 5

Location 17,618,147 – 17,618,261
Length 114
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 80.12
Mean single sequence MFE -50.58
Consensus MFE -34.64
Energy contribution -35.62
Covariance contribution 0.98
Combinations/Pair 1.37
Mean z-score -1.36
Structure conservation index 0.68
SVM decision value 0.20
SVM RNA-class probability 0.629156
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17618147 114 + 20766785
GUGCCUGGUCACCGCCGGACGCUGCUGUCCGUUGGCCAUCGCCAGUUGAUUCAAGCCCGGUGGCUUCGGAGCAAAAUUGGGCUUGCCAAAGCUGAUGGCCGGCUUCAUCG---GCAG
(((.(((((....))))).)))(((((...((((((((((((...(((...((((((((((.(((....)))...)))))))))).))).)).)))))))))).....))---))). ( -52.90)
>DroVir_CAF1 8289 114 + 1
AUGCCGCGCCACCGCCGGCCGCUGAUGCCCGUUGGCGAGCGCCAGUUGCUGCAGGCCCGGCGGCUUUGGCGCAAAGUUUGGCUUGCCAAACCCAAUGGCCGGCUUCUGUU---GCUG
..((((((((((((((((((((....((...(((((....)))))..)).)).)).)))))))...))))))...((((((....)))))).....)))((((.......---)))) ( -55.30)
>DroPse_CAF1 12312 114 + 1
GUGCCGCGUCACCGCCGGACGCUGCUGCCCGUUAACCAGAAUCAACUGCUGGAGCCCCGGCGGCUUUGGUGCAAAGUUCGGCUUGCCAAAGCUGAUGGCCGGCUUCUGCU---GCUG
..(((((..(((((((((..(((.(.((..(((..........))).)).).))).)))))))...))..)).....(((((((....))))))).)))((((....)))---)... ( -43.30)
>DroMoj_CAF1 23819 114 + 1
AUGUCGUGCCACCGCUGGACGCUGAUGCCCAUUGGCUAACGCCAGCUGCUGCAGCCCCGGCGGCUUUGGCGCAAAAUUUGGCUUGCCAAAGCCAAUUGCUGGCUUCUGUU---GCUG
.....(((((((((((((..((((..((...(((((....)))))..))..)))).)))))))...)))))).......(((..((..((((((.....))))))..)).---))). ( -50.00)
>DroAna_CAF1 6961 117 + 1
GUGCCUGGUCACCGCCGGACGUUGCUGGCCGUUGGCCAAGGCCAGUUGCUGCAGCCCCGGCGGCUUCGGCGCGAAGUUCGGUUUCCCGAAGCUAAUCGCCGGCUUCGUGGUGUGCUG
(((((.((...(((((((..(((((.(((..(((((....)))))..)))))))).)))))))..)))))))......((((..(((((((((.......))))))).))...)))) ( -58.70)
>DroPer_CAF1 12301 114 + 1
GUGCCGCGUCACCGCCGGACGCUGCUGCCCGUUAACCAGAAUCAACUGCUGGAGCCCCGGCGGCUUUGGUGCAAAGUUCGGCUUGCCAAAGCUGAUGGCCGGCUUCUGCU---GCUG
..(((((..(((((((((..(((.(.((..(((..........))).)).).))).)))))))...))..)).....(((((((....))))))).)))((((....)))---)... ( -43.30)
>consensus
GUGCCGCGUCACCGCCGGACGCUGCUGCCCGUUGGCCAGCGCCAGCUGCUGCAGCCCCGGCGGCUUUGGCGCAAAGUUCGGCUUGCCAAAGCUAAUGGCCGGCUUCUGCU___GCUG
..((((.((((..(((((..((((....(.((((((....)))))).)...)))).)))))(((((((((((........))..)))))))))..)))))))).............. (-34.64 = -35.62 +   0.98)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 17,618,147 – 17,618,261
Length 114
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 80.12
Mean single sequence MFE -49.73
Consensus MFE -32.47
Energy contribution -32.92
Covariance contribution 0.45
Combinations/Pair 1.26
Mean z-score -1.82
Structure conservation index 0.65
SVM decision value 0.60
SVM RNA-class probability 0.795919
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17618147 114 - 20766785
CUGC---CGAUGAAGCCGGCCAUCAGCUUUGGCAAGCCCAAUUUUGCUCCGAAGCCACCGGGCUUGAAUCAACUGGCGAUGGCCAACGGACAGCAGCGUCCGGCGGUGACCAGGCAC
.(((---(......((((((((((.((((((.(((((((......(((....)))....)))))))...)))..))))))))))...((((......)))))))(....)..)))). ( -50.10)
>DroVir_CAF1 8289 114 - 1
CAGC---AACAGAAGCCGGCCAUUGGGUUUGGCAAGCCAAACUUUGCGCCAAAGCCGCCGGGCCUGCAGCAACUGGCGCUCGCCAACGGGCAUCAGCGGCCGGCGGUGGCGCGGCAU
....---.......(((.......((((((((....)))))))).(((((...((((((((.((((..((...((((....))))....))..))).).)))))))))))))))).. ( -56.00)
>DroPse_CAF1 12312 114 - 1
CAGC---AGCAGAAGCCGGCCAUCAGCUUUGGCAAGCCGAACUUUGCACCAAAGCCGCCGGGGCUCCAGCAGUUGAUUCUGGUUAACGGGCAGCAGCGUCCGGCGGUGACGCGGCAC
....---.......(((((.((((.(((((((...((........)).))))))).(((((((((.(.((.((((((....))))))..)).).))).)))))))))).).)))).. ( -44.40)
>DroMoj_CAF1 23819 114 - 1
CAGC---AACAGAAGCCAGCAAUUGGCUUUGGCAAGCCAAAUUUUGCGCCAAAGCCGCCGGGGCUGCAGCAGCUGGCGUUAGCCAAUGGGCAUCAGCGUCCAGCGGUGGCACGACAU
....---.......((((((....(((((((((..((........)))))))))))((....)).......))))))(((.((((.(((((......)))))....))))..))).. ( -46.90)
>DroAna_CAF1 6961 117 - 1
CAGCACACCACGAAGCCGGCGAUUAGCUUCGGGAAACCGAACUUCGCGCCGAAGCCGCCGGGGCUGCAGCAACUGGCCUUGGCCAACGGCCAGCAACGUCCGGCGGUGACCAGGCAC
..............(((((((...((.(((((....)))))))...))))...(((((((((((((..((...((((....))))...))))))....))))))))).....))).. ( -56.60)
>DroPer_CAF1 12301 114 - 1
CAGC---AGCAGAAGCCGGCCAUCAGCUUUGGCAAGCCGAACUUUGCACCAAAGCCGCCGGGGCUCCAGCAGUUGAUUCUGGUUAACGGGCAGCAGCGUCCGGCGGUGACGCGGCAC
....---.......(((((.((((.(((((((...((........)).))))))).(((((((((.(.((.((((((....))))))..)).).))).)))))))))).).)))).. ( -44.40)
>consensus
CAGC___AGCAGAAGCCGGCCAUCAGCUUUGGCAAGCCGAACUUUGCGCCAAAGCCGCCGGGGCUGCAGCAACUGGCGCUGGCCAACGGGCAGCAGCGUCCGGCGGUGACGCGGCAC
..............(((.((....((.(((((....)))))))..))......(((((((((((((..((...((((....))))....))..)))).))))))))).....))).. (-32.47 = -32.92 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:48 2006