Locus 8481

Sequence ID X_DroMel_CAF1
Location 21,046,083 – 21,046,306
Length 223
Max. P 0.999352
window13950 window13951 window13952

overview

Window 0

Location 21,046,083 – 21,046,203
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.33
Mean single sequence MFE -35.37
Consensus MFE -30.45
Energy contribution -31.33
Covariance contribution 0.88
Combinations/Pair 1.06
Mean z-score -2.84
Structure conservation index 0.86
SVM decision value 3.53
SVM RNA-class probability 0.999352
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21046083 120 + 22224390
ACCCAUUUUUCCGCUUUCCGGCCAAUAUUUAAUUUGUCAAAGUGAGAUUUAACUGUCGGCGGUCCUGCAUCCAGUUGCAGUCGCUAGCACUUAACAAUUUGUUGAUAAAUUAGCCCGAGC
............((((...(((.......(((((((((((...((...((((.(((..((((..(((((......)))))))))..))).))))...))..)))))))))))))).)))) ( -31.81)
>DroSec_CAF1 16458 120 + 1
CCCUAUUUUUCCGCUUUCCGGCCAAUAUUUAAUUUGUCAAAGUGAGAUUUCACUGUCGGCGGUCCUGCAUCCAGUUGCAGUCGCUGGCACUUAACAAUUUGUUGAUAAAUUAGCCAGAGU
............(((((..(((.......(((((((((((((((......))))((((((((..(((((......))))))))))))).............))))))))))))))))))) ( -35.61)
>DroSim_CAF1 16993 120 + 1
CCCCAUUUAUCCGCUUUCCGGCCAAUAUUUAAUUUGUCAAAGUGAGAUUUCACUGUCGGCGGUCCUGCAUCCAGUUGCAGUCGCUGGCACUUAACAAUUUGUUGAUAAAUUAGCCGGAGU
...............(((((((.......(((((((((((((((......))))((((((((..(((((......))))))))))))).............)))))))))))))))))). ( -41.61)
>DroEre_CAF1 17214 120 + 1
CCCCAUUUUUCCGCCUUCCGGCUAAUAUUUAAUUUGUCAAAGUGAGAUUUCACUGUCGGCGGUCCUGCUUCCAGUUGCAGUCGCUUGCACUUAACAAUUUGUUGAUAAAUUAGCCGGAGU
...............(((((((((((.......(((((((((((......))))((.(((((..((((........))))))))).)).............)))))))))))))))))). ( -36.21)
>DroYak_CAF1 19000 120 + 1
ACCCAUUUUUCCGCUUUCCGGCUAAUAUUUAAUUUGUCAAAGUGAGAUUUCACUGUCGGCGGUCCUGCCUCCAGUUGCAGUCGCCUGCACUUAACAAUUUGUUGAUAAAUUAGCUGAAGC
............((((..((((((((..(((((((((..(((((.((((.(((((..((((....))))..))).)).)))).....))))).))))...)))))...)))))))))))) ( -31.60)
>consensus
CCCCAUUUUUCCGCUUUCCGGCCAAUAUUUAAUUUGUCAAAGUGAGAUUUCACUGUCGGCGGUCCUGCAUCCAGUUGCAGUCGCUGGCACUUAACAAUUUGUUGAUAAAUUAGCCGGAGU
...............(((((((.......(((((((((((((((......))))((.(((((..(((((......)))))))))).)).............)))))))))))))))))). (-30.45 = -31.33 +   0.88)

alignment

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secondary structure

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dotplot

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Window 1

Location 21,046,083 – 21,046,203
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.33
Mean single sequence MFE -30.75
Consensus MFE -27.03
Energy contribution -27.11
Covariance contribution 0.08
Combinations/Pair 1.10
Mean z-score -1.15
Structure conservation index 0.88
SVM decision value -0.08
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21046083 120 - 22224390
GCUCGGGCUAAUUUAUCAACAAAUUGUUAAGUGCUAGCGACUGCAACUGGAUGCAGGACCGCCGACAGUUAAAUCUCACUUUGACAAAUUAAAUAUUGGCCGGAAAGCGGAAAAAUGGGU
((((.(((((((...........((((((((((...(((.(((((......)))))...))).((........)).))).))))))).......))))))).))..))............ ( -26.67)
>DroSec_CAF1 16458 120 - 1
ACUCUGGCUAAUUUAUCAACAAAUUGUUAAGUGCCAGCGACUGCAACUGGAUGCAGGACCGCCGACAGUGAAAUCUCACUUUGACAAAUUAAAUAUUGGCCGGAAAGCGGAAAAAUAGGG
..((((((((((...........((((((((((.(.(((.(((((......)))))...))).).))((((....)))))))))))).......))))))))))................ ( -30.47)
>DroSim_CAF1 16993 120 - 1
ACUCCGGCUAAUUUAUCAACAAAUUGUUAAGUGCCAGCGACUGCAACUGGAUGCAGGACCGCCGACAGUGAAAUCUCACUUUGACAAAUUAAAUAUUGGCCGGAAAGCGGAUAAAUGGGG
..((((((((((...........((((((((((.(.(((.(((((......)))))...))).).))((((....)))))))))))).......))))))))))................ ( -32.67)
>DroEre_CAF1 17214 120 - 1
ACUCCGGCUAAUUUAUCAACAAAUUGUUAAGUGCAAGCGACUGCAACUGGAAGCAGGACCGCCGACAGUGAAAUCUCACUUUGACAAAUUAAAUAUUAGCCGGAAGGCGGAAAAAUGGGG
..((((((((((...........(((((((......(((.((((........))))...)))....(((((....)))))))))))).......))))))))))................ ( -31.37)
>DroYak_CAF1 19000 120 - 1
GCUUCAGCUAAUUUAUCAACAAAUUGUUAAGUGCAGGCGACUGCAACUGGAGGCAGGACCGCCGACAGUGAAAUCUCACUUUGACAAAUUAAAUAUUAGCCGGAAAGCGGAAAAAUGGGU
(((((.((((((...........(((((((((((((....)))))((((..(((......)))..))))..........)))))))).......))))))..).))))............ ( -32.57)
>consensus
ACUCCGGCUAAUUUAUCAACAAAUUGUUAAGUGCAAGCGACUGCAACUGGAUGCAGGACCGCCGACAGUGAAAUCUCACUUUGACAAAUUAAAUAUUGGCCGGAAAGCGGAAAAAUGGGG
..((((((((((...........(((((((......(((.((((........))))...)))....(((((....)))))))))))).......))))))))))................ (-27.03 = -27.11 +   0.08)

alignment

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secondary structure

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dotplot

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Window 2

Location 21,046,203 – 21,046,306
Length 103
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 77.98
Mean single sequence MFE -37.45
Consensus MFE -23.39
Energy contribution -24.95
Covariance contribution 1.56
Combinations/Pair 1.10
Mean z-score -1.73
Structure conservation index 0.62
SVM decision value 0.14
SVM RNA-class probability 0.603321
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21046203 103 + 22224390
UGGAGC------UGGAGCUGGAGCCGGAUCCAGAGUC------AGAGUCAACGCCGAAGUCAAUCUCACCGACGAAGGGA---GAGUGGCUUAAAAAGUUGCUUUCCUCUUGGCCGGC
(((..(------(((..(((((......)))))..))------))..)))..((((..(((.........))).((((((---(((..(((.....)))..)))))).)))...)))) ( -40.00)
>DroSec_CAF1 16578 115 + 1
CGGAGCCGAAGCCGGAGCCGGAGGCGGAUCCAGAGUCAGAGUCAGAGUCAACGCCAAAGUCAAUCUCGCUGACGAAGGGA---GAGUGGCUUAAAAAGUUGCUUUCCUUUUGGCCGGC
....((((..((((((.(((....))).)))...(((((.....(((...((......))....))).)))))(((((((---(((..(((.....)))..))))))))))))))))) ( -46.00)
>DroSim_CAF1 17113 103 + 1
CGGAGG------CGGAGCCGGAGGCGGAUCCAGAGUC------AGAGUCAACGCCAAAGUCAAUCUCACUGACGAAGGGA---GAGUGGCUUAAAAAGUUGCUUUCCUUUUGGCCGGC
....((------((((.(((....))).)))..(((.------(((....((......))...))).)))..((((((((---(((..(((.....)))..))))))))))))))... ( -38.10)
>DroYak_CAF1 19120 84 + 1
CGG----------------------GGAUCCA------------AAGCCAACGCCAAAGUCAAUCUCACUGACGGCGGGAGUAGAGUGGCUUAAAAAGUUGCUUUCCUUUUGGCCGGC
.((----------------------....)).------------..(((((((((...((((.......)))))))).(((.((((..(((.....)))..)))).)))))))).... ( -25.70)
>consensus
CGGAGC______CGGAGCCGGAGGCGGAUCCAGAGUC______AGAGUCAACGCCAAAGUCAAUCUCACUGACGAAGGGA___GAGUGGCUUAAAAAGUUGCUUUCCUUUUGGCCGGC
.............(((.(((....))).)))...............(((...(((...((((.......))))(((((((...(((..(((.....)))..))))))))))))).))) (-23.39 = -24.95 +   1.56)

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 13:05:20 2006