Locus 6028

Sequence ID X_DroMel_CAF1
Location 15,487,590 – 15,487,736
Length 146
Max. P 0.867933
window9796 window9797

overview

Window 6

Location 15,487,590 – 15,487,705
Length 115
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 78.01
Mean single sequence MFE -35.35
Consensus MFE -22.50
Energy contribution -22.26
Covariance contribution -0.24
Combinations/Pair 1.23
Mean z-score -1.69
Structure conservation index 0.64
SVM decision value 0.31
SVM RNA-class probability 0.683612
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15487590 115 - 22224390
UCAGUAGCGACACCUGUGGCUGUUAAACUGCACCAACUUCGGUGGUUCGACAAACUGACGAUAGGUGUCGCUCUUGCCGUUUGUGAAGUAAUUUGUAAGAUGCUG--UAUAUCUACA
.((((((((((((((((.(((((..(((..((((......)))))))..)))....).).)))))))))))((((((...(((.....)))...)))))))))))--.......... ( -37.40)
>DroSec_CAF1 47809 112 - 1
UGAAUAGCGACACCUAUGGCUGUAAAACUGCACCAACCUCGGUGCUUCGACAAACUGACCAUAGGUGUCGCUCUGCCCGUGUGUGAAGGUAUUUGUAAGAU---G--UAUAUCUACA
.....(((((((((((((((.((......(((((......)))))........)).).)))))))))))))).((((..........))))..((((.(((---.--...))))))) ( -37.64)
>DroSim_CAF1 60072 112 - 1
UGAAUAGCGACACCUAUGGCUGUAAAACUGCACCAACCUCGGUGGUUCGACAAACUGACGAUAGGUGUCGCUCUGCCCGUGUGUGAAGGUACUUGUAAGAU---G--UAUAGCAAAA
.....((((((((((((((.((((....)))))))...(((..((((.....))))..)))))))))))))).........(((....((((.........---)--))).)))... ( -31.50)
>DroEre_CAF1 49273 115 - 1
UCAGUGGCGACAUCUAUGGCUGUAAUUAUGCACCAAGCCUGGUGGUUCUUGAAACUGACGUCAGGUGUCGCUUUUGCCGUGUGUGAACGGUCGUGUAAAAUCGUG--UAUAUAUACA
.(((.((((((((((.(((.((((....)))))))((((....))))...............)))))))))).)))..(((((((.(((((........))))).--..))))))). ( -33.50)
>DroYak_CAF1 48072 117 - 1
UCAGUGGCGCCAUCUAUGGCUGUAAGUCGGCACCAAGCUCGUUGGUUCUGGGAACUUACGUUAGGUGUCGCUGUUGUCGUGUGUGAGCGGUCCUGUAAAAUUAUAUCUAUAUAUAAA
.(((.(.((((((.((((((....((.(((((((.....(((.(((((...))))).)))...)))))))))...)))))).))).))).).))).....((((((....)))))). ( -36.70)
>consensus
UCAGUAGCGACACCUAUGGCUGUAAAACUGCACCAACCUCGGUGGUUCGACAAACUGACGAUAGGUGUCGCUCUUGCCGUGUGUGAAGGGACUUGUAAGAU__UG__UAUAUCUACA
.(((.((((((((((((((.(((......))))))....((..((((.....))))..)).))))))))))).)))......................................... (-22.50 = -22.26 +  -0.24)

alignment

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secondary structure

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dotplot

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Window 7

Location 15,487,625 – 15,487,736
Length 111
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 78.01
Mean single sequence MFE -35.93
Consensus MFE -22.84
Energy contribution -24.76
Covariance contribution 1.92
Combinations/Pair 1.24
Mean z-score -1.91
Structure conservation index 0.64
SVM decision value 0.86
SVM RNA-class probability 0.867933
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15487625 111 - 22224390
GAGUUUAAAUGUAAA-CGCUUAAGCGAUUUGCUCAGUAGCGACACCUGUGGCUGUUAAACUGCACCAACUUCGGUGGUUCGACAAACUGACGAUAGGUGUCGCUCUUGCCGU
..........(((((-(((....))).))))).(((.((((((((((((.(((((..(((..((((......)))))))..)))....).).)))))))))))).))).... ( -38.20)
>DroSec_CAF1 47841 111 - 1
GAGUUGAAAUGCAAA-CGCUUAAUCGAUUUGCUGAAUAGCGACACCUAUGGCUGUAAAACUGCACCAACCUCGGUGCUUCGACAAACUGACCAUAGGUGUCGCUCUGCCCGU
(((((((...((...-.))....)))))))((.....(((((((((((((((.((......(((((......)))))........)).).))))))))))))))..)).... ( -40.34)
>DroSim_CAF1 60104 111 - 1
GAGUUGAAAUGCAAA-CGCUUAAUCGAUUUGCUGAAUAGCGACACCUAUGGCUGUAAAACUGCACCAACCUCGGUGGUUCGACAAACUGACGAUAGGUGUCGCUCUGCCCGU
(((((((...((...-.))....)))))))((.....((((((((((((((.((((....)))))))...(((..((((.....))))..))))))))))))))..)).... ( -34.30)
>DroEre_CAF1 49308 103 - 1
--UUUCAAA-------CGCUUAGGCGGCUUGCUCAGUGGCGACAUCUAUGGCUGUAAUUAUGCACCAAGCCUGGUGGUUCUUGAAACUGACGUCAGGUGUCGCUUUUGCCGU
--.......-------.......(((((.........((((((((((.(((.((((....)))))))((((....))))...............))))))))))...))))) ( -29.40)
>DroYak_CAF1 48109 112 - 1
GAUUUUAAAUAGAAAUAGCUGAAGUGGUGCGCUCAGUGGCGCCAUCUAUGGCUGUAAGUCGGCACCAAGCUCGUUGGUUCUGGGAACUUACGUUAGGUGUCGCUGUUGUCGU
(((....(((((..(((((((.((((((((........)))))).)).)))))))....(((((((.....(((.(((((...))))).)))...))))))))))))))).. ( -37.40)
>consensus
GAGUUGAAAUGCAAA_CGCUUAAGCGAUUUGCUCAGUAGCGACACCUAUGGCUGUAAAACUGCACCAACCUCGGUGGUUCGACAAACUGACGAUAGGUGUCGCUCUUGCCGU
..........(((((.(((....))).))))).(((.((((((((((((((.(((......))))))....((..((((.....))))..)).))))))))))).))).... (-22.84 = -24.76 +   1.92)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:24 2006