Locus 6910

Sequence ID X_DroMel_CAF1
Location 17,294,303 – 17,294,433
Length 130
Max. P 0.911290
window11303 window11304

overview

Window 3

Location 17,294,303 – 17,294,408
Length 105
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 77.91
Mean single sequence MFE -32.17
Consensus MFE -25.49
Energy contribution -25.27
Covariance contribution -0.22
Combinations/Pair 1.20
Mean z-score -0.91
Structure conservation index 0.79
SVM decision value 0.16
SVM RNA-class probability 0.610639
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17294303 105 - 22224390
A-CUA-C-AAUGUUAUCU-----GUU---U-AC-CUUCCAGGUGCGCUGUGGAUGUUACUACAGCAUCGCCAAUGACACCAAACAGAGCGGAAACGCGCGACGCCGGCACAAGCAGCU
.-...-.-...(((.(((-----(((---(-..-..((..((((.(((((((......)))))))..))))...))....)))))))(((....)))..)))((..((....)).)). ( -32.40)
>DroVir_CAF1 7060 109 - 1
----G-CUAACGUACUCUUUAUCGUU---U-AUUUCCUCAGGUGCGCUGUGGAUGCUACUACAGCAUCGCCAAUGACACAAAGCAGAGCGGGAACGCGCGACGCCGGCACAAGCAGCU
----(-((((((..........))))---.-..........(((((((((((......))))))).((((...((........))..(((....))))))).....)))).))).... ( -29.90)
>DroEre_CAF1 12263 105 - 1
U-CUA-A-UAUGUGAUCC-----GUU---U-GC-CAUCCAGGUGCGCUGUGGCUGUUACUACAGCAUCGCUAAUGACACCAAGCAGAGCGGAAACGCGCGACGCCGGCACAAGCAGCU
.-...-.-..........-----(((---(-(.-...((.((((.(((((((......))))))).((((...((....))......(((....)))))))))))))..))))).... ( -32.60)
>DroYak_CAF1 2480 106 - 1
U-CUGCA-AAUGACAUCU-----GUU---U-GC-CUUCCAGGUGCGCUGUGGAUGUUACUACAGCAUCGCCAAUGACACCAAACAGAGCGGAAACGCGCGACGCAGGCACAAGCAGCU
.-((((.-.......(((-----(((---(-(.-..((..((((.(((((((......)))))))..))))...))...))))))))(((....))).....))))((....)).... ( -39.20)
>DroMoj_CAF1 17555 111 - 1
AUCUA-CAAA---AAUCUUCUUUUCC---UCCUUCCUGCAGGUGCGCUGUGGAUGCUACUACAGCAUCGCCAAUGACACUAAGCAGAGCGGCAACGCGCGACGCCGGCACAAGCAGCU
.....-....---.............---......((((..(((((((((((......))))))).((((...((........))..(((....))))))).....))))..)))).. ( -33.80)
>DroAna_CAF1 10856 105 - 1
--C---U-AAUCCUUUCC-----AUCCAAU-CC-CUUCCAGGUGCGCUGUGGAUGUUAUUAUAGCAUCGCCAACGACACGAAGCUGAGCGGCAAUGCCAGGCGCCGGCACAAGCAGCU
--.---.-..........-----.......-.(-(.....))...(((((.(((((((...)))))))..............((((.(((.(.......).)))))))....))))). ( -25.10)
>consensus
__CUA_C_AAUGUAAUCU_____GUU___U_AC_CUUCCAGGUGCGCUGUGGAUGUUACUACAGCAUCGCCAAUGACACCAAGCAGAGCGGAAACGCGCGACGCCGGCACAAGCAGCU
.......................................((.((((((((((......)))))))...(((................(((....)))((...)).)))....))).)) (-25.49 = -25.27 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 4

Location 17,294,343 – 17,294,433
Length 90
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 79.14
Mean single sequence MFE -19.42
Consensus MFE -14.68
Energy contribution -14.27
Covariance contribution -0.41
Combinations/Pair 1.27
Mean z-score -1.81
Structure conservation index 0.76
SVM decision value 1.08
SVM RNA-class probability 0.911290
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17294343 90 - 22224390
UCU-UAUCAUAAUCCU-----AUAUUUCCUAACUA-CAAUGUUAUCUGUU---UACCUUCCAGGUGCGCUGUGGAUGUUACUACAGCAUCGCCAAUGACA
...-..((((......-----........((((..-....))))......---.........((((.(((((((......)))))))..)))).)))).. ( -18.50)
>DroSec_CAF1 11350 92 - 1
UCU-UAUCAUAAUCCUUU---AUAUUUCAUAACUA-CAAUGCUAUCUGUU---UACCUUCCAGGUGCGCUGUGGAUGUUACUACAGCAUCGCCAAUGACA
...-..((((........---..............-....((.(((((..---.......)))))))(((((((......))))))).......)))).. ( -17.50)
>DroSim_CAF1 2502 92 - 1
UCU-UAUCAUAAUCCUUU---AUAUUUCAUAACUA-CAAUGCUAUCUGUU---UACCUUCCAGGUGCGCUGUGGAUGUUACUACAGCAUCGCCAAUGACA
...-..((((........---..............-....((.(((((..---.......)))))))(((((((......))))))).......)))).. ( -17.50)
>DroEre_CAF1 12303 90 - 1
UCU-UAUCAUUACGUU-----AUAUUUCUUAUCUA-AUAUGUGAUCCGUU---UGCCAUCCAGGUGCGCUGUGGCUGUUACUACAGCAUCGCUAAUGACA
...-..((((((....-----(((((........)-))))(((((..((.---.(((.....)))))(((((((......)))))))))))))))))).. ( -20.50)
>DroYak_CAF1 2520 92 - 1
UCCUGAACAUAAUCCU-----AUCGUUCCUAUCUGCAAAUGACAUCUGUU---UGCCUUCCAGGUGCGCUGUGGAUGUUACUACAGCAUCGCCAAUGACA
....(((((((....)-----)).))))......((((((.......)))---)))......((((.(((((((......)))))))..))))....... ( -21.70)
>DroAna_CAF1 10896 94 - 1
AUU-CGAC-UAAUCCUGGCAAGGAUCUCCUG-C---UAAUCCUUUCCAUCCAAUCCCUUCCAGGUGCGCUGUGGAUGUUAUUAUAGCAUCGCCAACGACA
..(-((..-......(((.((((((......-.---..)))))).)))..............((((.(((((((......)))))))..))))..))).. ( -20.80)
>consensus
UCU_UAUCAUAAUCCU_____AUAUUUCCUAACUA_CAAUGCUAUCUGUU___UACCUUCCAGGUGCGCUGUGGAUGUUACUACAGCAUCGCCAAUGACA
..............................................................((((.(((((((......)))))))..))))....... (-14.68 = -14.27 +  -0.41)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:46 2006