Locus 191

Sequence ID 2L_DroMel_CAF1
Location 574,713 – 574,829
Length 116
Max. P 0.572905
window285 window286

overview

Window 5

Location 574,713 – 574,829
Length 116
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 79.94
Mean single sequence MFE -32.40
Consensus MFE -23.63
Energy contribution -23.96
Covariance contribution 0.34
Combinations/Pair 1.08
Mean z-score -1.47
Structure conservation index 0.73
SVM decision value 0.08
SVM RNA-class probability 0.572905
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 574713 116 + 22407834
GAAGCCCGACUUU---GGGCCACACCUUUAAAAUA-UUUAGAACCUCUCGAAUAAAUAACAUAUUUUUAGUAAAUUUCGUGGCCGGUCUGGAGUGCUAUGUCUGCUCCAACCAGACGGGC
...(((((.....---.((((((..........((-(((((.....)).))))).......(((.....)))......))))))(((.((((((.........)))))))))...))))) ( -33.60)
>DroPse_CAF1 14843 109 + 1
UAUGCUAGAGAUUUACGGGCCACACCUCAAUAAUACUUUAUAAUCUCCCCGAUA-----------UCUAGUGAGUUUUGUGGCCGGCCUGGAGUGCUAUGUGUGCUCCAACCAGACGGGC
...(((...........(((((((.((((((((....)))).(((.....))).-----------.....))))...)))))))((..(((((..(.....)..))))).)).....))) ( -31.80)
>DroPer_CAF1 14827 109 + 1
UAUGCUAGAGAUUUACGGGCCACACCUCAAUAAUACUUUAUAAUCUCCCCGAUA-----------UCUAGUGAGUUUUGUGGCCGGCCUGGAGUGCUAUGUGUGCUCCAACCAGACGGGC
...(((...........(((((((.((((((((....)))).(((.....))).-----------.....))))...)))))))((..(((((..(.....)..))))).)).....))) ( -31.80)
>consensus
UAUGCUAGAGAUUUACGGGCCACACCUCAAUAAUACUUUAUAAUCUCCCCGAUA___________UCUAGUGAGUUUUGUGGCCGGCCUGGAGUGCUAUGUGUGCUCCAACCAGACGGGC
...(((.(.........(((((((.(((...........................................)))...)))))))((..((((((((.....)))))))).))...).))) (-23.63 = -23.96 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 574,713 – 574,829
Length 116
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 79.94
Mean single sequence MFE -31.43
Consensus MFE -26.01
Energy contribution -24.92
Covariance contribution -1.10
Combinations/Pair 1.24
Mean z-score -1.09
Structure conservation index 0.83
SVM decision value -0.04
SVM RNA-class probability 0.514017
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 574713 116 - 22407834
GCCCGUCUGGUUGGAGCAGACAUAGCACUCCAGACCGGCCACGAAAUUUACUAAAAAUAUGUUAUUUAUUCGAGAGGUUCUAAA-UAUUUUAAAGGUGUGGCCC---AAAGUCGGGCUUC
(((((.((((((((((...........))))).)))(((((((...((((....((((((.........((....))......)-)))))))))..))))))).---..)).)))))... ( -36.16)
>DroPse_CAF1 14843 109 - 1
GCCCGUCUGGUUGGAGCACACAUAGCACUCCAGGCCGGCCACAAAACUCACUAGA-----------UAUCGGGGAGAUUAUAAAGUAUUAUUGAGGUGUGGCCCGUAAAUCUCUAGCAUA
((..((((((..((.((.......)).)))))))).(((((((...((((...((-----------(((...............)))))..)))).)))))))............))... ( -29.06)
>DroPer_CAF1 14827 109 - 1
GCCCGUCUGGUUGGAGCACACAUAGCACUCCAGGCCGGCCACAAAACUCACUAGA-----------UAUCGGGGAGAUUAUAAAGUAUUAUUGAGGUGUGGCCCGUAAAUCUCUAGCAUA
((..((((((..((.((.......)).)))))))).(((((((...((((...((-----------(((...............)))))..)))).)))))))............))... ( -29.06)
>consensus
GCCCGUCUGGUUGGAGCACACAUAGCACUCCAGGCCGGCCACAAAACUCACUAGA___________UAUCGGGGAGAUUAUAAAGUAUUAUUGAGGUGUGGCCCGUAAAUCUCUAGCAUA
((..((((((..((.((.......)).)))))))).(((((((...((((.(((.............(((.....))).........))).)))).)))))))............))... (-26.01 = -24.92 +  -1.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:28:51 2006