Locus 2534

Sequence ID X_DroMel_CAF1
Location 6,762,777 – 6,762,871
Length 94
Max. P 0.999773
window4138 window4139

overview

Window 8

Location 6,762,777 – 6,762,871
Length 94
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 65.27
Mean single sequence MFE -35.67
Consensus MFE -18.14
Energy contribution -17.37
Covariance contribution -0.77
Combinations/Pair 1.24
Mean z-score -2.75
Structure conservation index 0.51
SVM decision value 4.05
SVM RNA-class probability 0.999773
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6762777 94 + 22224390
---------------------ACGCAGAGGAGCGGCAACAUGCCG-----UCGUCAGCAAUAAAUAAAGCAGCACGCAGUGUUGCCAAUGCGAUUCAAUUGCUGGCAAUCGUUCUCUAUU
---------------------....(((((((((((.....))))-----).(((((((((.......(((((((...)))))))...((.....))))))))))).....))))))... ( -32.90)
>DroEre_CAF1 51400 94 + 1
---------------------ACGCAGAGCAGCGGCAACAUGCCG-----UCGACGGCAAUAAAUAAAGCAGCACGCAGUGUUGCCAAUGCGAUCCAAUUGCUGGCAAUCGUUCUCUAUU
---------------------....((((.(((((((((((((((-----....))))..........((.....)).)))))))).....((((((.....)))..))))))))))... ( -30.30)
>DroAna_CAF1 65767 120 + 1
AAGAAUGAAGCAGGGAGCCGGAGGCGGUGGGGCGGGGGAACCCCGAGGUUCCUACGCCAAUAAAAAAAAAGGGACGAGAGUUUGCCAAUGGUUUCCAAUUUCUGGCAAUUGUUCUCUAUU
..(...((((..((((((((..(((.....((((..((((((....))))))..)))).............((((....)))))))..))))))))..))))...).............. ( -43.80)
>consensus
_____________________ACGCAGAGGAGCGGCAACAUGCCG_____UCGACGGCAAUAAAUAAAGCAGCACGCAGUGUUGCCAAUGCGAUCCAAUUGCUGGCAAUCGUUCUCUAUU
.........................((((.(((((((...)))).....................................((((((..((((.....))))))))))..)))))))... (-18.14 = -17.37 +  -0.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 6,762,777 – 6,762,871
Length 94
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 65.27
Mean single sequence MFE -31.37
Consensus MFE -17.51
Energy contribution -15.85
Covariance contribution -1.65
Combinations/Pair 1.33
Mean z-score -1.91
Structure conservation index 0.56
SVM decision value 2.49
SVM RNA-class probability 0.994573
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6762777 94 - 22224390
AAUAGAGAACGAUUGCCAGCAAUUGAAUCGCAUUGGCAACACUGCGUGCUGCUUUAUUUAUUGCUGACGA-----CGGCAUGUUGCCGCUCCUCUGCGU---------------------
(((((((..((((((....))))))...((((.((....)).)))).....)))))))....((.((.((-----((((.....)))).)).)).))..--------------------- ( -29.20)
>DroEre_CAF1 51400 94 - 1
AAUAGAGAACGAUUGCCAGCAAUUGGAUCGCAUUGGCAACACUGCGUGCUGCUUUAUUUAUUGCCGUCGA-----CGGCAUGUUGCCGCUGCUCUGCGU---------------------
..((((((.((((((....))))))..))(((.((((((((..((.....)).........(((((....-----))))))))))))).)))))))...--------------------- ( -32.00)
>DroAna_CAF1 65767 120 - 1
AAUAGAGAACAAUUGCCAGAAAUUGGAAACCAUUGGCAAACUCUCGUCCCUUUUUUUUUAUUGGCGUAGGAACCUCGGGGUUCCCCCGCCCCACCGCCUCCGGCUCCCUGCUUCAUUCUU
....((((....(((((((.....(....)..)))))))..)))).................((((..((((((....))))))..)))).....(((...)))................ ( -32.90)
>consensus
AAUAGAGAACGAUUGCCAGCAAUUGGAUCGCAUUGGCAACACUGCGUGCUGCUUUAUUUAUUGCCGUCGA_____CGGCAUGUUGCCGCUCCUCUGCGU_____________________
..(((((..((((((....)))))).........(((.....((((.((.............)))).)).......((((...))))))).)))))........................ (-17.51 = -15.85 +  -1.65)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:06 2006