Locus 5766

Sequence ID 2R_DroMel_CAF1
Location 18,280,422 – 18,280,513
Length 91
Max. P 0.993715
window9237 window9238

overview

Window 7

Location 18,280,422 – 18,280,513
Length 91
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 81.56
Mean single sequence MFE -25.27
Consensus MFE -17.68
Energy contribution -18.20
Covariance contribution 0.52
Combinations/Pair 1.19
Mean z-score -2.95
Structure conservation index 0.70
SVM decision value 2.42
SVM RNA-class probability 0.993715
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18280422 91 + 20766785
ACUUUUUACCAU----AUA--UAUGGUAACUGUGCGUAUGAGUGAUAUUGUUGCAAAGAAGAAUAAUCAUACGCACCGUUGUGCAGUUAAGUGCUUA
......((((((----...--.))))))((.((((((((((....((((.((......)).)))).)))))))))).)).(..(......)..)... ( -24.80)
>DroSec_CAF1 78173 88 + 1
ACUUUUUACCAU----AUG--UAUGGUAACUGUGCGUAUGAGUGAUAUUGUUACAAAGAAGAAUAAUCAUACGCACCGUUGCCCAGU---AUGCUUA
.........(((----((.--...((((((.((((((((((....((((.((......)).)))).)))))))))).))))))..))---))).... ( -28.90)
>DroSim_CAF1 79236 88 + 1
ACUUUUUACCAU----AUG--AAUGGUAACUGUGCGUAUGAGUGAUAUUGUUACAAAGAAGAAUAAUCAUACGCACCGUUGCCCAGU---AUGCUUA
.........(((----((.--...((((((.((((((((((....((((.((......)).)))).)))))))))).))))))..))---))).... ( -28.90)
>DroEre_CAF1 81713 92 + 1
ACUUUU--ACAUUGAGAAAGUAAGGGCAACUGUGCGUAUGCGUGAUAUCGUUACACAGAAGAAUAAUCAUACGCACUGUGGUACAGU---AAGCUUA
((((((--.......))))))..((((.(((((((....(((......)))..(((((.................))))))))))))---..)))). ( -19.83)
>DroYak_CAF1 79189 90 + 1
ACUUUUUAACAU----GAAUUGGGGACAACUGUGCGUAUGGGUGAUAUCGUUACACAAAAGAGUAAUCAUACGCACUGUGGCACAGU---AAGUUUA
.......(((..----....((....))(((((((.((((((((.(((.(((((........))))).)))))).))))))))))))---..))).. ( -23.90)
>consensus
ACUUUUUACCAU____AUA__AAUGGUAACUGUGCGUAUGAGUGAUAUUGUUACAAAGAAGAAUAAUCAUACGCACCGUUGCACAGU___AUGCUUA
.........................(((((.((((((((((....((((.((......)).)))).)))))))))).)))))............... (-17.68 = -18.20 +   0.52)

alignment

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secondary structure

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dotplot

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Window 8

Location 18,280,422 – 18,280,513
Length 91
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 81.56
Mean single sequence MFE -19.77
Consensus MFE -12.83
Energy contribution -12.83
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.15
Structure conservation index 0.65
SVM decision value 0.88
SVM RNA-class probability 0.873235
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18280422 91 - 20766785
UAAGCACUUAACUGCACAACGGUGCGUAUGAUUAUUCUUCUUUGCAACAAUAUCACUCAUACGCACAGUUACCAUA--UAU----AUGGUAAAAAGU
...(((......)))......((((((((((.((((.((......)).))))....))))))))))..(((((((.--...----)))))))..... ( -22.60)
>DroSec_CAF1 78173 88 - 1
UAAGCAU---ACUGGGCAACGGUGCGUAUGAUUAUUCUUCUUUGUAACAAUAUCACUCAUACGCACAGUUACCAUA--CAU----AUGGUAAAAAGU
.......---....(....).((((((((((.((((.((......)).))))....))))))))))..(((((((.--...----)))))))..... ( -21.30)
>DroSim_CAF1 79236 88 - 1
UAAGCAU---ACUGGGCAACGGUGCGUAUGAUUAUUCUUCUUUGUAACAAUAUCACUCAUACGCACAGUUACCAUU--CAU----AUGGUAAAAAGU
.......---....(....).((((((((((.((((.((......)).))))....))))))))))..(((((((.--...----)))))))..... ( -21.60)
>DroEre_CAF1 81713 92 - 1
UAAGCUU---ACUGUACCACAGUGCGUAUGAUUAUUCUUCUGUGUAACGAUAUCACGCAUACGCACAGUUGCCCUUACUUUCUCAAUGU--AAAAGU
...((((---...........(((((((((........((........)).......)))))))))........((((.........))--)))))) ( -16.16)
>DroYak_CAF1 79189 90 - 1
UAAACUU---ACUGUGCCACAGUGCGUAUGAUUACUCUUUUGUGUAACGAUAUCACCCAUACGCACAGUUGUCCCCAAUUC----AUGUUAAAAAGU
.......---(((.....((((((((((((.((((.(....).)))).(....)...)))))))))(((((....))))).----.))).....))) ( -17.20)
>consensus
UAAGCAU___ACUGGGCAACGGUGCGUAUGAUUAUUCUUCUUUGUAACAAUAUCACUCAUACGCACAGUUACCAUA__UAU____AUGGUAAAAAGU
.....................(((((((((...........................)))))))))............................... (-12.83 = -12.83 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:53 2006