Locus 4053

Sequence ID X_DroMel_CAF1
Location 10,740,820 – 10,740,928
Length 108
Max. P 0.777771
window6659 window6660

overview

Window 9

Location 10,740,820 – 10,740,928
Length 108
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 80.41
Mean single sequence MFE -27.28
Consensus MFE -18.07
Energy contribution -18.48
Covariance contribution 0.42
Combinations/Pair 1.12
Mean z-score -1.45
Structure conservation index 0.66
SVM decision value 0.17
SVM RNA-class probability 0.616652
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10740820 108 + 22224390
UUUAAACUAUUCUGUUUCGUUUUAUUUGCCACCACAUGCAUACCUGUUAGUGUCAGUAUAUUGUCGCAGGCAUUUUUGCGCCUACGCGGCACAUCGAUCGGCACAAAG
...((((......)))).........((((..(((..(((....)))..))).........((((((((((........))))..))))))........))))..... ( -22.60)
>DroSec_CAF1 16654 99 + 1
CUUAAACCAUUCCAUUUCGUUUUAUUUGCC---------AUACCAGUUAGUGUCAGUAUAUUGUCGCAGGCAUUCUUGCGCCUACGCGGCACAUUGAUCGGCACAAAG
..........................((((---------.(((......)))(((((....((((((((((........))))..)))))).)))))..))))..... ( -21.00)
>DroSim_CAF1 6128 108 + 1
CUUAAACCAUUCCAUUUCGUUUUAUUUGCCACCACAUGCAUACCAGUUAGUGUCAGUAUAUUGUCGCAGGCAUUCUUGCGCCUACGCGGCACAUUGAUGGGCACAAAG
..........................((((..(((..((......))..)))(((((....((((((((((........))))..)))))).)))))..))))..... ( -23.10)
>DroEre_CAF1 16833 104 + 1
UUAAAACCAUUUUGUUCCGUUUUAUGUGCCACAU----CAUACCCGUCAGUGUUAGUAUAUUGUCGCAGGCAUUCUUGCGCCUACGCGGCACAUCGAUCGGCACAAAG
..........(((((.(((.((.(((((((....----.......(.((((((....)))))).)((((((........))))..))))))))).)).))).))))). ( -32.60)
>DroYak_CAF1 16974 104 + 1
UUUAAACCAUUAUGUUUCGUUCCAUGUGCCACAU----CGUACCCGUUAGUGUCAGUAUAUUGUCGCAGGCAUUCUUCCGCCUACGCGGCACAUUGAUCGGCACAAAG
............(((.(((.((.(((((((.(..----...........(((.(((....))).)))((((........))))..).))))))).)).))).)))... ( -28.50)
>DroAna_CAF1 19413 104 + 1
UGUGAACUAUUCCUUUAG----AAUGGGCUUCCUUUAGCUUACCUGUGAGUUGAAGUAUAUUGUCGCAGGCAUUUUUCCGCCUGCGAGGCACAUUGACGGGCACGAAC
.(((..((((((.....)----)))))(((((((((((((((....)))))))))).........((((((........)))))))))))...........))).... ( -35.90)
>consensus
UUUAAACCAUUCCGUUUCGUUUUAUGUGCCACCU____CAUACCAGUUAGUGUCAGUAUAUUGUCGCAGGCAUUCUUGCGCCUACGCGGCACAUUGAUCGGCACAAAG
.................................................(((((.((....((((((((((........))))..)))))).....)).))))).... (-18.07 = -18.48 +   0.42)

alignment

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secondary structure

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dotplot

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Window 0

Location 10,740,820 – 10,740,928
Length 108
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 80.41
Mean single sequence MFE -29.50
Consensus MFE -20.59
Energy contribution -21.07
Covariance contribution 0.47
Combinations/Pair 1.25
Mean z-score -1.66
Structure conservation index 0.70
SVM decision value 0.55
SVM RNA-class probability 0.777771
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10740820 108 - 22224390
CUUUGUGCCGAUCGAUGUGCCGCGUAGGCGCAAAAAUGCCUGCGACAAUAUACUGACACUAACAGGUAUGCAUGUGGUGGCAAAUAAAACGAAACAGAAUAGUUUAAA
.(((((..((.......(((((((((((((......))))))).(((.((((((..........))))))..))).)))))).......))..))))).......... ( -29.24)
>DroSec_CAF1 16654 99 - 1
CUUUGUGCCGAUCAAUGUGCCGCGUAGGCGCAAGAAUGCCUGCGACAAUAUACUGACACUAACUGGUAU---------GGCAAAUAAAACGAAAUGGAAUGGUUUAAG
..(((.((((.((....(((((((((((((......)))))))).)...((((((........))))))---------))))..............)).)))).))). ( -23.97)
>DroSim_CAF1 6128 108 - 1
CUUUGUGCCCAUCAAUGUGCCGCGUAGGCGCAAGAAUGCCUGCGACAAUAUACUGACACUAACUGGUAUGCAUGUGGUGGCAAAUAAAACGAAAUGGAAUGGUUUAAG
.(((((..((((((.(((((.(((((((((......)))))))).)...((((((........)))))))))))))))))...))))).................... ( -27.60)
>DroEre_CAF1 16833 104 - 1
CUUUGUGCCGAUCGAUGUGCCGCGUAGGCGCAAGAAUGCCUGCGACAAUAUACUAACACUGACGGGUAUG----AUGUGGCACAUAAAACGGAACAAAAUGGUUUUAA
.(((((.(((....(((((((.((((((((......))))))))(((.((((((..........))))))----.))))))))))....))).))))).......... ( -37.60)
>DroYak_CAF1 16974 104 - 1
CUUUGUGCCGAUCAAUGUGCCGCGUAGGCGGAAGAAUGCCUGCGACAAUAUACUGACACUAACGGGUACG----AUGUGGCACAUGGAACGAAACAUAAUGGUUUAAA
((.(((((((..((.(((((((((((((((......)))))))).)............(....)))))))----.))))))))).))....((((......))))... ( -34.00)
>DroAna_CAF1 19413 104 - 1
GUUCGUGCCCGUCAAUGUGCCUCGCAGGCGGAAAAAUGCCUGCGACAAUAUACUUCAACUCACAGGUAAGCUAAAGGAAGCCCAUU----CUAAAGGAAUAGUUCACA
....(((..(.((.((((...(((((((((......)))))))))..)))).............((...(((......)))))...----......))...)..))). ( -24.60)
>consensus
CUUUGUGCCGAUCAAUGUGCCGCGUAGGCGCAAGAAUGCCUGCGACAAUAUACUGACACUAACAGGUAUG____AGGUGGCAAAUAAAACGAAACAGAAUGGUUUAAA
.(((((...........(((((((((((((......))))))).....((((((..........))))))......))))))...........))))).......... (-20.59 = -21.07 +   0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:11 2006