Locus 58

Sequence ID X_DroMel_CAF1
Location 250,447 – 250,605
Length 158
Max. P 0.965304
window70 window71 window72

overview

Window 0

Location 250,447 – 250,565
Length 118
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 90.78
Mean single sequence MFE -23.13
Consensus MFE -17.95
Energy contribution -18.07
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.53
Structure conservation index 0.78
SVM decision value 0.39
SVM RNA-class probability 0.717922
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 250447 118 + 22224390
UAGAAAUGAACGCGACAACAGAAAUAUCUAUAUGCAAGUAUACAUAUACUUGUAUCCCUCACUCUU-UUUCACUUUUUCUUUUUU-CGCCGAUCUCCUGCUCUCUUCUGCAGGUCCUGGC
..((((.(((.........(((....)))..((((((((((....))))))))))...........-.........)))...)))-)((((....(((((........)))))...)))) ( -24.70)
>DroSim_CAF1 19195 118 + 1
UAGAAAUGAACGCGACAACAGAAAUAUCUAUAUGCAAGUAUGCAUAUACUUGUAUCUCUCACUCUU-UUUCACUUUUUCUUUUUU-CGCCGAUCUCCUGCUCUCUUCUGCAGGUCCUGGC
.(((((((((...((....(((.(((..((((((((....))))))))..))).))).....))..-.))))...))))).....-.((((....(((((........)))))...)))) ( -26.60)
>DroYak_CAF1 19996 112 + 1
UAGAAAUGAACGCAACAACAAAAAUAUCUAUAUGCAAGUAUGCAUAUAC--------CUUACUCUUUUUUCACCUUUUCUUUUUUCCGUCGAUCUCCUGCUCUCUUCUGCAGGUCCUGGC
.(((((((((.(......).........((((((((....)))))))).--------...........))))...))))).......((((....(((((........)))))...)))) ( -18.10)
>consensus
UAGAAAUGAACGCGACAACAGAAAUAUCUAUAUGCAAGUAUGCAUAUACUUGUAUC_CUCACUCUU_UUUCACUUUUUCUUUUUU_CGCCGAUCUCCUGCUCUCUUCUGCAGGUCCUGGC
.(((((((((.(......).........((((((((....))))))))....................))))...))))).......((((....(((((........)))))...)))) (-17.95 = -18.07 +   0.11)

alignment

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secondary structure

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dotplot

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Window 1

Location 250,447 – 250,565
Length 118
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 90.78
Mean single sequence MFE -28.47
Consensus MFE -24.16
Energy contribution -23.83
Covariance contribution -0.33
Combinations/Pair 1.06
Mean z-score -2.15
Structure conservation index 0.85
SVM decision value 0.45
SVM RNA-class probability 0.740228
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 250447 118 - 22224390
GCCAGGACCUGCAGAAGAGAGCAGGAGAUCGGCG-AAAAAAGAAAAAGUGAAA-AAGAGUGAGGGAUACAAGUAUAUGUAUACUUGCAUAUAGAUAUUUCUGUUGUCGCGUUCAUUUCUA
(((....(((((........))))).....)))(-(((...(((...((((..-....(..((..(((((......))))).))..)..(((((....)))))..)))).))).)))).. ( -29.40)
>DroSim_CAF1 19195 118 - 1
GCCAGGACCUGCAGAAGAGAGCAGGAGAUCGGCG-AAAAAAGAAAAAGUGAAA-AAGAGUGAGAGAUACAAGUAUAUGCAUACUUGCAUAUAGAUAUUUCUGUUGUCGCGUUCAUUUCUA
(((....(((((........))))).....))).-.....((((...(((((.-..((...(((((((....((((((((....))))))))..)))))))....))...))))))))). ( -30.90)
>DroYak_CAF1 19996 112 - 1
GCCAGGACCUGCAGAAGAGAGCAGGAGAUCGACGGAAAAAAGAAAAGGUGAAAAAAGAGUAAG--------GUAUAUGCAUACUUGCAUAUAGAUAUUUUUGUUGUUGCGUUCAUUUCUA
.......(((((........)))))........(((((...(((...(..(...(((((((..--------.((((((((....))))))))..)))))))....)..).))).))))). ( -25.10)
>consensus
GCCAGGACCUGCAGAAGAGAGCAGGAGAUCGGCG_AAAAAAGAAAAAGUGAAA_AAGAGUGAG_GAUACAAGUAUAUGCAUACUUGCAUAUAGAUAUUUCUGUUGUCGCGUUCAUUUCUA
(((....(((((........))))).....))).......((((...(((((......((((..........((((((((....))))))))((((....)))).)))).))))))))). (-24.16 = -23.83 +  -0.33)

alignment

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secondary structure

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dotplot

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Window 2

Location 250,487 – 250,605
Length 118
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 91.34
Mean single sequence MFE -16.80
Consensus MFE -15.22
Energy contribution -15.00
Covariance contribution -0.22
Combinations/Pair 1.08
Mean z-score -2.76
Structure conservation index 0.91
SVM decision value 1.58
SVM RNA-class probability 0.965304
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 250487 118 + 22224390
UACAUAUACUUGUAUCCCUCACUCUU-UUUCACUUUUUCUUUUUU-CGCCGAUCUCCUGCUCUCUUCUGCAGGUCCUGGCUACGAAAACUCGUUUAAAUUAAGAUUCAACAUUCAUUUUU
((((......))))............-..........((((..((-.((((....(((((........)))))...)))).((((....))))...))..))))................ ( -18.40)
>DroSim_CAF1 19235 118 + 1
UGCAUAUACUUGUAUCUCUCACUCUU-UUUCACUUUUUCUUUUUU-CGCCGAUCUCCUGCUCUCUUCUGCAGGUCCUGGCUACGAAAACUCGUUUAAAUUAAGAUUCAACAUUCAUUUUU
.........(((.((((.........-..................-.((((....(((((........)))))...)))).((((....))))........)))).)))........... ( -18.80)
>DroYak_CAF1 20036 112 + 1
UGCAUAUAC--------CUUACUCUUUUUUCACCUUUUCUUUUUUCCGUCGAUCUCCUGCUCUCUUCUGCAGGUCCUGGCUACGAAAACUCGUUUAAAUUAACAUUCAACAUUCAUUUUU
.........--------..............................((((....(((((........)))))...)))).((((....))))........................... ( -13.20)
>consensus
UGCAUAUACUUGUAUC_CUCACUCUU_UUUCACUUUUUCUUUUUU_CGCCGAUCUCCUGCUCUCUUCUGCAGGUCCUGGCUACGAAAACUCGUUUAAAUUAAGAUUCAACAUUCAUUUUU
...............................................((((....(((((........)))))...)))).((((....))))........................... (-15.22 = -15.00 +  -0.22)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:36 2006