Locus 2177

Sequence ID X_DroMel_CAF1
Location 5,899,973 – 5,900,104
Length 131
Max. P 0.800100
window3530 window3531

overview

Window 0

Location 5,899,973 – 5,900,079
Length 106
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.18
Mean single sequence MFE -30.26
Consensus MFE -25.36
Energy contribution -25.60
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -1.43
Structure conservation index 0.84
SVM decision value 0.45
SVM RNA-class probability 0.741705
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5899973 106 - 22224390
-------AACACUGCU-------GACUAGCUGCAACAUCAUCGGUGGCAAGCUGCAACAAUCGCAUCAUCAAGCGAUGCCGUUGCUGCUAUUGAACUUUUGCUAUUUGGCCAAGAUUCCC
-------......((.-------.(.((((..........(((((((((....(((((.(((((........)))))...))))))))))))))......)))).)..)).......... ( -29.49)
>DroSec_CAF1 16655 106 - 1
-------AACACUGCU-------GACUAGCUGCAACAUCAUCGGUGGCAAGCUGCAACAAUCGCAUCAUCAAGCGAUGCCGUUGCUGCUAUUGAACUUUUGCUAUGUGGCCAAGAUUCCC
-------..(((.(((-------....))).((((.....(((((((((....(((((.(((((........)))))...))))))))))))))....))))...)))............ ( -29.00)
>DroSim_CAF1 14006 106 - 1
-------AACACUGCU-------GACUAGCUGCAACAUCAUCGGUGGCAAGCUGCAACAAUCGCAUCAUCAAGCGAUGCCGUUGCUGCUAUUGAACUUUUGCUAUUUGGCCAAGAUUCCC
-------......((.-------.(.((((..........(((((((((....(((((.(((((........)))))...))))))))))))))......)))).)..)).......... ( -29.49)
>DroEre_CAF1 16751 113 - 1
-------AACACCGCAGACGGACGACUGGCUGCAACAUCAUCGGUGGCAAGCUGCAACAAUCGCAUCAUCAAGCGAUGCCGUUGCUGCUAUUGAACUUUUGCUAUUUGCCCAAGAUUCCC
-------......((((.(((....))).)))).......(((((((((....(((((.(((((........)))))...)))))))))))))).(((..((.....))..)))...... ( -32.80)
>DroYak_CAF1 16905 116 - 1
CUACAAAAACACUGCA----GACGACUAGCUGCAACAUCAUCGGUGGCAAGCUGCAACAAUCGCAUCAUCAGGCGAUGCCGUUGCUGCUAUUGAACUUUUGCUAUUUGGCCAAGAUUCCC
............((((----(.(.....))))))......(((((((((....(((((.(((((........)))))...)))))))))))))).(((..(((....))).)))...... ( -30.50)
>consensus
_______AACACUGCU_______GACUAGCUGCAACAUCAUCGGUGGCAAGCUGCAACAAUCGCAUCAUCAAGCGAUGCCGUUGCUGCUAUUGAACUUUUGCUAUUUGGCCAAGAUUCCC
.......................(.((((..((((.....(((((((((....(((((.(((((........)))))...))))))))))))))....))))...)))).)......... (-25.36 = -25.60 +   0.24)

alignment

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secondary structure

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dotplot

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Window 1

Location 5,900,013 – 5,900,104
Length 91
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 84.85
Mean single sequence MFE -26.10
Consensus MFE -16.92
Energy contribution -16.60
Covariance contribution -0.32
Combinations/Pair 1.14
Mean z-score -2.32
Structure conservation index 0.65
SVM decision value 0.61
SVM RNA-class probability 0.800100
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5900013 91 - 22224390
UAGC------AGCAAUACUAGAAACACUGGA-------------AACACUGCU-------GACUAGCUGCAACAUCAUCGGUGGCAAGCUGCAACAAUCGCAUCAUCAAGCGAUGCC
..((------(((....((((.....)))).-------------..(((((.(-------((............))).)))))....)))))....(((((........)))))... ( -24.60)
>DroSec_CAF1 16695 91 - 1
UAGC------AGCAACACUAGAAACACUGGA-------------AACACUGCU-------GACUAGCUGCAACAUCAUCGGUGGCAAGCUGCAACAAUCGCAUCAUCAAGCGAUGCC
..((------(((....((((.....)))).-------------..(((((.(-------((............))).)))))....)))))....(((((........)))))... ( -24.60)
>DroSim_CAF1 14046 91 - 1
UAGC------AGCAACACUAGAAACACUGGA-------------AACACUGCU-------GACUAGCUGCAACAUCAUCGGUGGCAAGCUGCAACAAUCGCAUCAUCAAGCGAUGCC
..((------(((....((((.....)))).-------------..(((((.(-------((............))).)))))....)))))....(((((........)))))... ( -24.60)
>DroEre_CAF1 16791 98 - 1
CAGC------AGCAACACUGGAAACUCUAGA-------------AACACCGCAGACGGACGACUGGCUGCAACAUCAUCGGUGGCAAGCUGCAACAAUCGCAUCAUCAAGCGAUGCC
..((------(((....((((.....)))).-------------..((((((((.(((....))).)))).........))))....)))))....(((((........)))))... ( -30.00)
>DroYak_CAF1 16945 113 - 1
CAGCAGCAGCAGCAACACUUGAAACACUAGACACACACUACAAAAACACUGCA----GACGACUAGCUGCAACAUCAUCGGUGGCAAGCUGCAACAAUCGCAUCAUCAGGCGAUGCC
..((.(((((.((.((...(((.....(((.......))).........((((----(.(.....))))))...)))...)).))..)))))....(((((........))))))). ( -26.70)
>consensus
UAGC______AGCAACACUAGAAACACUGGA_____________AACACUGCU_______GACUAGCUGCAACAUCAUCGGUGGCAAGCUGCAACAAUCGCAUCAUCAAGCGAUGCC
..((.......((....((((.....))))..................................((((((..(((.....))))).))))))....(((((........))))))). (-16.92 = -16.60 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:00 2006