Locus 777

Sequence ID 2R_DroMel_CAF1
Location 3,740,198 – 3,740,358
Length 160
Max. P 0.692010
window1360 window1361

overview

Window 0

Location 3,740,198 – 3,740,318
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.67
Mean single sequence MFE -36.87
Consensus MFE -34.65
Energy contribution -34.65
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.59
Structure conservation index 0.94
SVM decision value 0.05
SVM RNA-class probability 0.556452
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3740198 120 - 20766785
CACGGGUCCUGUGAAGCUCCUACACGAUCCCGAGGACACCAUUCUGAACACCUUGGAUGGCGCUCUGGAGAAGAUCUCCACCAUCUACAUGCAGGCCUUGUUCGCUGGUACCCACACCCC
..((((((.((((.......)))).)).)))).((..((((...((((((((((((((((.....(((((.....)))))))))))).....)))...)))))).))))..))....... ( -36.70)
>DroSim_CAF1 2905 120 - 1
CACGGGUCCUGUGAAGCUCCUACACGAUCCCGCGGACACCAUUCUGAACAGCUUGGAUGUCGCUCUGGAGAAGAUCUCCACCAUCUACAUGCAGGCCUUGUUCGCUGGUACCCACACCCC
..((((((.((((.......)))).)).)))).((..((((...(((((((((((.((((.(...(((((.....)))))....).)))).)))))..)))))).))))..))....... ( -38.70)
>DroYak_CAF1 2826 120 - 1
CACGGGUCCUGUGAAACUCCUACACGAUCCCGAGGACACCAUUCUGAACACCUUGGAUGGCGCUCUGGAGAAGAUCUCCACUAUCUACAUGCAGGCCUUGUUCGCUGGUACCCACACACC
..((((((.((((.......)))).)).)))).((..((((...((((((.((((.(((......(((((.....))))).......))).))))...)))))).))))..))....... ( -35.22)
>consensus
CACGGGUCCUGUGAAGCUCCUACACGAUCCCGAGGACACCAUUCUGAACACCUUGGAUGGCGCUCUGGAGAAGAUCUCCACCAUCUACAUGCAGGCCUUGUUCGCUGGUACCCACACCCC
..((((((.((((.......)))).)).)))).((..((((...((((((.((((.(((......(((((.....))))).......))).))))...)))))).))))..))....... (-34.65 = -34.65 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 3,740,238 – 3,740,358
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 94.44
Mean single sequence MFE -48.27
Consensus MFE -38.69
Energy contribution -39.13
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -2.58
Structure conservation index 0.80
SVM decision value 0.33
SVM RNA-class probability 0.692010
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3740238 120 + 20766785
UGGAGAUCUUCUCCAGAGCGCCAUCCAAGGUGUUCAGAAUGGUGUCCUCGGGAUCGUGUAGGAGCUUCACAGGACCCGUGAGCUUUGGAGAAGCACGGUAAUGGUGCAGACCAUCUUCAG
(((((((.((((((((((((((......)))))))........(..(.((((.((.(((.((....))))).)))))).)..)..)))))))((((.......)))).....))))))). ( -44.70)
>DroSim_CAF1 2945 120 + 1
UGGAGAUCUUCUCCAGAGCGACAUCCAAGCUGUUCAGAAUGGUGUCCGCGGGAUCGUGUAGGAGCUUCACAGGACCCGUGAGCUUUGGAGAAGCACGGUACUGGCGCAGACCAUCUUCAG
(((((((((((((((((((((((.(((..((....))..)))))))((((((.((.(((.((....))))).)))))))).))))))))))))...(((.(((...))))))))))))). ( -54.70)
>DroYak_CAF1 2866 120 + 1
UGGAGAUCUUCUCCAGAGCGCCAUCCAAGGUGUUCAGAAUGGUGUCCUCGGGAUCGUGUAGGAGUUUCACAGGACCCGUGAGUUUUGGAGAAGCACGGUACUUGUGCAUACCAUCUGCAG
(((((.....)))))(((((((......)))))))(((.((((((.(.(((((((((((.....((((.((((((......)))))))))).))))))).)))).).))))))))).... ( -45.40)
>consensus
UGGAGAUCUUCUCCAGAGCGCCAUCCAAGGUGUUCAGAAUGGUGUCCUCGGGAUCGUGUAGGAGCUUCACAGGACCCGUGAGCUUUGGAGAAGCACGGUACUGGUGCAGACCAUCUUCAG
((((((((((((((((((((((......)))))))........(..(.((((.((.(((.((....))))).)))))).)..)..))))))))...(((..........)))))))))). (-38.69 = -39.13 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:04 2006