Locus 9124

Sequence ID 3R_DroMel_CAF1
Location 24,361,182 – 24,361,303
Length 121
Max. P 0.884552
window14596 window14597

overview

Window 6

Location 24,361,182 – 24,361,275
Length 93
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 92.47
Mean single sequence MFE -23.50
Consensus MFE -20.43
Energy contribution -21.48
Covariance contribution 1.06
Combinations/Pair 1.11
Mean z-score -1.84
Structure conservation index 0.87
SVM decision value 0.93
SVM RNA-class probability 0.884552
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24361182 93 - 27905053
GCUUAAAUGCGCAUUCUGUUUGCUCAUUUGCACUGCUCAUUUGGUCAAAUGCGUGGCAAAUAUUUCAUUAGGCAUUUGGGCAAACUUUGUUGU
(((((((((((((.......)))..((((((...((.(((((....))))).)).))))))..........))))))))))............ ( -26.10)
>DroGri_CAF1 166538 92 - 1
GCUCAACUGUGCAUUCUGUUUGCUCAUUUGCUCCGCUCGUUUGCUCAAACGCGUGACAAAUAUUACAUUAAGCAUUUAUGCAAACUUUGUUG-
((.(....).)).....((((((..(..((((.(((.(((((....))))).))).....((......))))))..)..)))))).......- ( -18.30)
>DroSim_CAF1 191544 93 - 1
GCUUAAAUGCGCAUUCUGUUUGCUCAUUUGCACUGCUCGUUUGGUCAAAUGCGUGGCAAAUAUUUCAUUAGGCAUUUGGGCAAACUUUGUUGU
(((((((((((((.......)))..((((((...((.(((((....))))).)).))))))..........))))))))))............ ( -25.70)
>DroEre_CAF1 195439 93 - 1
GCUUAAAUGCGCAUUCUGUUUACUCAUUUGCUCUGCUCAUUUGGCCAAAUGCGUGGCAAAUAUUUCAUUAGGCAUUUGGGCAAACUUUGUUGU
((((((((((((.....))......(((((((..((.(((((....))))).)))))))))..........))))))))))............ ( -23.10)
>DroYak_CAF1 189334 93 - 1
GCUUAAAUGCGCAUUCUGUUUGCUCAUUUGCUCUGCUCAUUUGGCCAAAUGCGUGGCAAAUAUUUCAUUAGGCAUUUGGGCAAACUUUGUUGU
(((((((((((((.......)))..(((((((..((.(((((....))))).)))))))))..........))))))))))............ ( -26.70)
>DroAna_CAF1 185281 92 - 1
GCUUAACUGUGCAUUCUGUUUGCUCAUUUGCUCUGCUCGU-UGGCCAAAUGCGUGGCAAAUAUUUCAUUAGGCAUUUGUGCAAACUUUGUUGU
((........)).....((((((.((..((((.((...((-(.((((......)))).)))....))...))))..)).))))))........ ( -21.10)
>consensus
GCUUAAAUGCGCAUUCUGUUUGCUCAUUUGCUCUGCUCAUUUGGCCAAAUGCGUGGCAAAUAUUUCAUUAGGCAUUUGGGCAAACUUUGUUGU
(((((((((((((.......)))..(((((((..((.(((((....))))).)))))))))..........))))))))))............ (-20.43 = -21.48 +   1.06)

alignment

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secondary structure

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dotplot

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Window 7

Location 24,361,197 – 24,361,303
Length 106
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 78.69
Mean single sequence MFE -25.67
Consensus MFE -13.41
Energy contribution -13.50
Covariance contribution 0.09
Combinations/Pair 1.21
Mean z-score -1.89
Structure conservation index 0.52
SVM decision value 0.10
SVM RNA-class probability 0.583515
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24361197 106 - 27905053
----UUUCUCAGGCCCAGUCUCGGUGAAC-UGGGCUUAAAUGCGCAUUCUGUUUGCUCAUUUGCACUGCUCAUUUGGUCAAAUGCGUGGCAAAUAUUUCAUUAGGCAUUUG
----......((((((((((.....).))-)))))))(((((((((.......)))..((((((...((.(((((....))))).)).))))))..........)))))). ( -32.40)
>DroVir_CAF1 169066 107 - 1
----UAUGCCUGUCUCUUUCUAUCUGUGCUAGAGCUUUACUGUGCAUUCUGUUUGCUCAUUUGCUUUGCUCGUUUGUUCAAACGCGUGACAAAUAUUUCAUUAGGCAUUUA
----.(((((((.............(.((.(((((.....((.(((.......))).))...))))))).)((((((.((......)))))))).......)))))))... ( -23.00)
>DroGri_CAF1 166552 107 - 1
----UUUCUUCGUCUCUUUCUAUCUGAGCUUGAGCUCAACUGUGCAUUCUGUUUGCUCAUUUGCUCCGCUCGUUUGCUCAAACGCGUGACAAAUAUUACAUUAAGCAUUUA
----.......(((...........((((.(((((..(((.(......).))).)))))...)))).((.(((((....))))).)))))..................... ( -21.20)
>DroYak_CAF1 189349 106 - 1
----UUUCUCGCGCCCAGUCUCGGUAAAC-UGGGCUUAAAUGCGCAUUCUGUUUGCUCAUUUGCUCUGCUCAUUUGGCCAAAUGCGUGGCAAAUAUUUCAUUAGGCAUUUG
----........(((((((........))-))))).((((((((((.......)))..(((((((..((.(((((....))))).)))))))))..........))))))) ( -31.20)
>DroMoj_CAF1 145624 101 - 1
----UUUAUUUGUCCCUGUCUAACU------GAGCUUCAAUGCGAAUUCAGUUUGCUCAUUUACUUUGCUCGUUUGCUCAAACGCGUGACAAAUAUUUCAUUAGGCAUUUA
----..((((((((...((..((((------(((.(((.....)))))))))).))...........((.(((((....))))).))))))))))................ ( -20.30)
>DroAna_CAF1 185296 106 - 1
UCUGUCUCUGCGACUCUGUCU---UUGAC-UGCGCUUAACUGUGCAUUCUGUUUGCUCAUUUGCUCUGCUCGU-UGGCCAAAUGCGUGGCAAAUAUUUCAUUAGGCAUUUG
...(((.....)))..(((((---.(((.-(((((......)))))...((((((((((((((..(.......-.)..))))))...))))))))..)))..))))).... ( -25.90)
>consensus
____UUUCUCCGUCCCUGUCUAGCUGAAC_UGAGCUUAAAUGCGCAUUCUGUUUGCUCAUUUGCUCUGCUCGUUUGGUCAAACGCGUGACAAAUAUUUCAUUAGGCAUUUA
.................................((((((..(.(((.......))).)(((((..((((.(((((....))))).)))))))))......))))))..... (-13.41 = -13.50 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:27:04 2006