Locus 5600

Sequence ID X_DroMel_CAF1
Location 14,458,681 – 14,458,834
Length 153
Max. P 0.980432
window9094 window9095

overview

Window 4

Location 14,458,681 – 14,458,794
Length 113
Sequences 3
Columns 118
Reading direction reverse
Mean pairwise identity 82.32
Mean single sequence MFE -27.93
Consensus MFE -19.52
Energy contribution -19.87
Covariance contribution 0.35
Combinations/Pair 1.18
Mean z-score -2.96
Structure conservation index 0.70
SVM decision value 1.86
SVM RNA-class probability 0.980432
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14458681 113 - 22224390
UUCG-----AUUUUUUUGUACGCCGAUGAACAAUGAUUUCGCAUUGUUUGUUUGUGUGCAAAAACUCAAAUUAUUAAUUACCAAGCCAGAAUGUUUUUGUUUUUCGUGAUUUUCUUUG
...(-----(..(((((((((((.((..(((((((......)))))))..)).))))))))))).))(((((((.((..((.((((......))))..))..)).)))))))...... ( -27.40)
>DroEre_CAF1 3601 104 - 1
CUCACU-----UUUUUG-CUCGCCGAUGAACAAUGAUUUCGCAUUGUUCG---GCGGGCGAAAACUGAAAUUAUUAAUUACCAAGCAAGAAUGUUUUUGUUUUUCGUGAUUUU-----
.(((..-----((((((-((((((((...((((((......)))))))))---))))))))))).))).......((((((.((((((((....))))))))...))))))..----- ( -34.10)
>DroYak_CAF1 4574 112 - 1
CUCACUCACAUUUUUUGUUUCGCCGAUGAACAAUGAUUUCGCCUUGUUCG---GUGUGCAAAAACUGAAAUUAUUAAUUACCCGGCAAGAAUGUUUUUGUUUUUCGUGAUUUUCU---
.((((...((.(((((((..((((((...((((.(......).)))))))---))).))))))).))................(((((((....)))))))....))))......--- ( -22.30)
>consensus
CUCACU___AUUUUUUG_UUCGCCGAUGAACAAUGAUUUCGCAUUGUUCG___GUGUGCAAAAACUGAAAUUAUUAAUUACCAAGCAAGAAUGUUUUUGUUUUUCGUGAUUUUCU___
...........((((((.(((((...(((((((((......)))))))))...)))))))))))...........((((((.((((((((....))))))))...))))))....... (-19.52 = -19.87 +   0.35)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 5

Location 14,458,721 – 14,458,834
Length 113
Sequences 3
Columns 118
Reading direction reverse
Mean pairwise identity 85.92
Mean single sequence MFE -30.47
Consensus MFE -21.44
Energy contribution -20.90
Covariance contribution -0.54
Combinations/Pair 1.21
Mean z-score -2.30
Structure conservation index 0.70
SVM decision value 0.37
SVM RNA-class probability 0.709846
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14458721 113 - 22224390
CGCGAUGAGAUGACAUAAUUGCUUGGCUUCUUGUGAAUCAUUCG-----AUUUUUUUGUACGCCGAUGAACAAUGAUUUCGCAUUGUUUGUUUGUGUGCAAAAACUCAAAUUAUUAAU
.....((((.......(((((..(((.(((....))))))..))-----)))(((((((((((.((..(((((((......)))))))..)).))))))))))))))).......... ( -32.20)
>DroEre_CAF1 3636 108 - 1
CGCGAUGAGAUGACAUAAUUGC-CGGCUUCUUGUGAAUCACUCACU-----UUUUUG-CUCGCCGAUGAACAAUGAUUUCGCAUUGUUCG---GCGGGCGAAAACUGAAAUUAUUAAU
(((((.(((.((.((....)).-)).))).)))))......(((..-----((((((-((((((((...((((((......)))))))))---))))))))))).))).......... ( -34.50)
>DroYak_CAF1 4611 115 - 1
CGCGAUGAGAUGACAUAAUUGCUCGGCUUCUUGUGAAUCACUCACUCACAUUUUUUGUUUCGCCGAUGAACAAUGAUUUCGCCUUGUUCG---GUGUGCAAAAACUGAAAUUAUUAAU
...((((((.((((((((..((...))...)))))..))))))).)).((.(((((((..((((((...((((.(......).)))))))---))).))))))).))........... ( -24.70)
>consensus
CGCGAUGAGAUGACAUAAUUGCUCGGCUUCUUGUGAAUCACUCACU___AUUUUUUG_UUCGCCGAUGAACAAUGAUUUCGCAUUGUUCG___GUGUGCAAAAACUGAAAUUAUUAAU
.....((((.((((((((..((...))...)))))..))))))).......((((((.(((((...(((((((((......)))))))))...))))))))))).............. (-21.44 = -20.90 +  -0.54)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:58 2006