Locus 6576

Sequence ID X_DroMel_CAF1
Location 16,423,898 – 16,424,055
Length 157
Max. P 0.796796
window10746 window10747

overview

Window 6

Location 16,423,898 – 16,424,018
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.33
Mean single sequence MFE -38.82
Consensus MFE -23.09
Energy contribution -23.15
Covariance contribution 0.06
Combinations/Pair 1.48
Mean z-score -2.40
Structure conservation index 0.59
SVM decision value 0.60
SVM RNA-class probability 0.796796
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16423898 120 - 22224390
ACCAUGUGAACAAGAAAGCCCUGGAUCAGUUCUUGAGCUUCUCCGAGCAGAAGGAGAAGCUCUAUCGCCGCAAAGAGGAGCUCGACAUCGGUGACCAGAAGAUCCACAUGCUAAUUCAGU
....((....)).((((((..((((((..((((.((((((((((........))))))))))..((((((....(((...))).....))))))..))))))))))...)))..)))... ( -41.30)
>DroVir_CAF1 607 120 - 1
AUCACGUCAACAAGAAGGCCCUCGACCAGUUCUUGAGCUUUUCUGAGCAAAAGGAAAAGCUCUACAGGCGCAAGGAGGAACUUGAUGUGGGCGAUCAGAAGAUACACAUGCUUAUCCAUU
....((((.(((..(((..((((..((.((....((((((((((........)))))))))).)).))(....)))))..)))..))).)))).......((((........)))).... ( -34.40)
>DroGri_CAF1 615 120 - 1
AUCAUGUGAACAAGAAGGCGCUCGAUCAAUUCCUCAGCUUUUCCGAGCAGAAGGAGAAGCUGUACAGGCGCAAGGAGGAGCUUGAUGUGGGUGAUCAGAAGAUCCAUAUCCUCAUCCAGU
.((.((....)).))..(((((.((.....))..((((((((((........))))))))))....)))))..(((.(((...(((((((((.........)))))))))))).)))... ( -40.90)
>DroWil_CAF1 44174 120 - 1
AUCAUGUCAACAAAAAGGCUUUGGAUCAGUUUCUCAGUUUUUCCGAGCAAAAGGAAAAACUGUAUCGCCGCAAAGAAGAGUUGGAUAUCGGCAAUCAAAAGAUUCUUUUACUCAUACAGU
....(((.........(((...(((......)))((((((((((........))))))))))....)))....(((((((((.(((.......)))....)))))))))......))).. ( -26.00)
>DroMoj_CAF1 629 120 - 1
ACCAUGUGAACAAGAAGGCGCUCGAUCAGUUCCUUAGCUUCUCGGAGCAAAAGGAGAAGCUGUACAGGCGCAAGGAGGAGCUGGAUGUGGGCGACCAGAAGAUUCACAUGCUCAUCCAAU
..((((((((......((((((((.((((((((((((((((((..........)))))))).......(....)))))))))))...)))))).))......)))))))).......... ( -46.80)
>DroAna_CAF1 607 120 - 1
ACCACGUGAACAAGAAGGCCCUGGACCAGUUUCUUAGCUUCUCCGAGCAGAAGGAGAAGCUCUACCGGCGCAAGGAGGAACUGGACGUGGGCGACCAAAAGAUCCACAUGCUCAUCCAGU
....................((((((((((((((((((((((((........))))))))).......(....)))))))))))..((((((........).))))).......))))). ( -43.50)
>consensus
ACCAUGUGAACAAGAAGGCCCUCGAUCAGUUCCUCAGCUUCUCCGAGCAAAAGGAGAAGCUCUACAGGCGCAAGGAGGAGCUGGAUGUGGGCGACCAGAAGAUCCACAUGCUCAUCCAGU
.................((((...((((((((((((((((((((........))))))))))......(....).))))))).)))..))))............................ (-23.09 = -23.15 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 16,423,938 – 16,424,055
Length 117
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 83.11
Mean single sequence MFE -32.35
Consensus MFE -25.22
Energy contribution -24.17
Covariance contribution -1.05
Combinations/Pair 1.40
Mean z-score -1.60
Structure conservation index 0.78
SVM decision value 0.18
SVM RNA-class probability 0.619677
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16423938 117 - 22224390
---GAGCUGGAGAAGGCAAACCAGCACCUGAAGAAGUAUAACCAUGUGAACAAGAAAGCCCUGGAUCAGUUCUUGAGCUUCUCCGAGCAGAAGGAGAAGCUCUAUCGCCGCAAAGAGGAG
---(((((((....(((....(((...)))..............((....)).....))).....)))))))..((((((((((........)))))))))).....((.......)).. ( -33.00)
>DroVir_CAF1 647 117 - 1
---GAGCUGGAGAAAGCCAAUCAGCAUCUGAAGAAAUACAAUCACGUCAACAAGAAGGCCCUCGACCAGUUCUUGAGCUUUUCUGAGCAAAAGGAAAAGCUCUACAGGCGCAAGGAGGAA
---(((((((.((..(((..((((...))))...............((.....)).)))..))..)))))))..((((((((((........))))))))))......(....)...... ( -32.60)
>DroGri_CAF1 655 117 - 1
---GAGCUGGAGAAGGCCAAUCAGCAUCUAAAGAAAUACAAUCAUGUGAACAAGAAGGCGCUCGAUCAAUUCCUCAGCUUUUCCGAGCAGAAGGAGAAGCUGUACAGGCGCAAGGAGGAG
---(((((((......)))....((.((....)).......((.((....)).))..)))))).......((((((((((((((........))))))))).......(....)))))). ( -33.60)
>DroWil_CAF1 44214 117 - 1
---GAACUGGAACAGGCCAAUCAGCACUUGAAGAAGUUCAAUCAUGUCAACAAAAAGGCUUUGGAUCAGUUUCUCAGUUUUUCCGAGCAAAAGGAAAAACUGUAUCGCCGCAAAGAAGAG
---(((((((..((((((.....(.((((....)))).).....((....))....))).)))..)))))))..((((((((((........)))))))))).................. ( -27.70)
>DroMoj_CAF1 669 117 - 1
---GAGCUGGAGAAGGCCAAUCAGCAUCUGAAGAAGUACAACCAUGUGAACAAGAAGGCGCUCGAUCAGUUCCUUAGCUUCUCGGAGCAAAAGGAGAAGCUGUACAGGCGCAAGGAGGAG
---..(((((.((..(((..((((...)))).....((((....))))........)))..))..)))))(((((((((((((..........)))))))).......(....)))))). ( -30.70)
>DroAna_CAF1 647 119 - 1
UAGGAACUGGAAAAAGCCAAUCAGCU-CUGAAGAAGUACAACCACGUGAACAAGAAGGCCCUGGACCAGUUUCUUAGCUUCUCCGAGCAGAAGGAGAAGCUCUACCGGCGCAAGGAGGAA
.(((((((((.....(((..(((...-.)))....((.((......)).)).....)))......))))))))).(((((((((........)))))))))...((..(....)..)).. ( -36.50)
>consensus
___GAGCUGGAGAAGGCCAAUCAGCAUCUGAAGAAGUACAACCAUGUGAACAAGAAGGCCCUCGAUCAGUUCCUCAGCUUCUCCGAGCAAAAGGAGAAGCUCUACAGGCGCAAGGAGGAG
...(((((((.....(((..((((...))))..............(....).....)))......)))))))..((((((((((........)))))))))).................. (-25.22 = -24.17 +  -1.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:24 2006