Locus 1803

Sequence ID 2R_DroMel_CAF1
Location 6,754,252 – 6,754,384
Length 132
Max. P 0.773836
window2992 window2993

overview

Window 2

Location 6,754,252 – 6,754,344
Length 92
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 80.80
Mean single sequence MFE -25.08
Consensus MFE -15.06
Energy contribution -16.65
Covariance contribution 1.59
Combinations/Pair 1.22
Mean z-score -1.61
Structure conservation index 0.60
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6754252 92 - 20766785
ACUUUCAAUCGCUGAACAAUAUUGUCAAUAUGGCCAAUGUUCAGGGAUUGGCUGGCGGCAGUUCCGGAAUAUAUCCAGCACCUCAAGGAUUC
.....(((((.(((((((.....(((.....)))...))))))).)))))((((((((.....)))........))))).((....)).... ( -27.10)
>DroSec_CAF1 5190 92 - 1
ACUUCCAAUCGCUGAACAAUAUUGUCAAUAUGGCCAAUGUUCAGGGAUUGGCUGGCGGCAGUUCCAGACUAUAUCCAGCACCCCAAGGAUUC
.....(((((.(((((((.....(((.....)))...))))))).)))))(((((....((((...))))....))))).((....)).... ( -27.10)
>DroSim_CAF1 7893 92 - 1
ACUUCCAAUCGCUGAACAACAUUGUCAAUAUGGCCAAUGUUCAGGGAUUGGCUGGUGGCAGCUCCGGACUAUAUCCAGCACCUCAAGGAUUU
(((.((((((.(((((((.....(((.....)))...))))))).))))))..)))....(((..(((.....)))))).((....)).... ( -27.20)
>DroEre_CAF1 5043 92 - 1
ACUUCCAAUCGGUGAACCAUAUUGUCAAUAUGGCCAACGUUCAGGGAUUGGCUGGCGGCAAUUCCGGAAUUUAUCCAGCACCUCAAGGAUUC
...(((....((((..((((((.....)))))).....((((.(((((((.(....).))))))).))))........))))....)))... ( -24.80)
>DroYak_CAF1 7760 92 - 1
ACUUCCAAUCGCUGAAUAAUAUUGUCAAUAUGGCCAAUGUUCAGGGAUUGACUGGCGGCAGUACCGCAUCAUAUCCAGCACCUCAAGGAUUC
.....(((((.(((((((.....(((.....)))...))))))).)))))....((((.....)))).....((((..........)))).. ( -23.60)
>DroPer_CAF1 5606 86 - 1
ACUUCUCGGCUCUGAACAACAUCGUGAACAUGGCCAAUGUCCAAGGACUGGGAGGAUCUAACCAAGGAUUCUAUCAAAAUCCCCAG------
.((((((((((.((.((......))...)).))))...(((....))).))))))..........(((((.......)))))....------ ( -20.70)
>consensus
ACUUCCAAUCGCUGAACAAUAUUGUCAAUAUGGCCAAUGUUCAGGGAUUGGCUGGCGGCAGUUCCGGAAUAUAUCCAGCACCUCAAGGAUUC
.....(((((.(((((((.....(((.....)))...))))))).)))))((((((((.....)))........)))))............. (-15.06 = -16.65 +   1.59)

alignment

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secondary structure

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dotplot

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Window 3

Location 6,754,280 – 6,754,384
Length 104
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 79.94
Mean single sequence MFE -34.58
Consensus MFE -20.24
Energy contribution -21.72
Covariance contribution 1.48
Combinations/Pair 1.25
Mean z-score -2.04
Structure conservation index 0.59
SVM decision value 0.54
SVM RNA-class probability 0.773836
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6754280 104 - 20766785
CAGCUGCCUAAUGGAUUUGUGCCCAAUCCAGCCGUAGAUAACUUUCAAUCGCUGAACAAUAUUGUCAAUAUGGCCAAUGUUCAGGGAUUGGCUGGCGGCAGUUC
.(((((((...(((........)))..((((((...((......))((((.(((((((.....(((.....)))...))))))).)))))))))).))))))). ( -39.10)
>DroSec_CAF1 5218 104 - 1
CAGCUGCCCAAUGGAUUUGUGCCCAAUCCUGCCGUAGAUAACUUCCAAUCGCUGAACAAUAUUGUCAAUAUGGCCAAUGUUCAGGGAUUGGCUGGCGGCAGUUC
.(((((((....(((((.......))))).(((((.....))..((((((.(((((((.....(((.....)))...))))))).))))))..)))))))))). ( -37.60)
>DroSim_CAF1 7921 104 - 1
CAGCUGCCCAAUGGAUUUGUGCCCAAUCCUGCCGUGGACAACUUCCAAUCGCUGAACAACAUUGUCAAUAUGGCCAAUGUUCAGGGAUUGGCUGGUGGCAGCUC
.(((((((...(((........))).(((......)))..(((.((((((.(((((((.....(((.....)))...))))))).))))))..)))))))))). ( -38.80)
>DroYak_CAF1 7788 104 - 1
CAGCUGCCUAAUGGAUUUGUGCCUAACCCGGCCGUAGACAACUUCCAAUCGCUGAAUAAUAUUGUCAAUAUGGCCAAUGUUCAGGGAUUGACUGGCGGCAGUAC
..((((((...((..(.((.(((......))))).)..)).....(((((.(((((((.....(((.....)))...))))))).)))))...))))))..... ( -33.50)
>DroAna_CAF1 5842 98 - 1
CAACUGCCCAACGGAUUUGUACCACAGCCUUCGGUGGAUAACUUCCAGGCUCUGAACAGCAUCGUGAACAUGGCCAAUUCCCAGGGACUGGGCGGCGG------
...(((((....(((.((((.((((........))))))))..))).((((.((.((......))...)).))))....(((((...))))).)))))------ ( -29.70)
>DroPer_CAF1 5628 104 - 1
CAGCUGCCCAACGGAUUCGUGCCCCAGCCAUCGGUGGACAACUUCUCGGCUCUGAACAACAUCGUGAACAUGGCCAAUGUCCAAGGACUGGGAGGAUCUAACCA
..((((....(((....)))....))))....((((((...((((((((((.((.((......))...)).))))...(((....))).)))))).))).))). ( -28.80)
>consensus
CAGCUGCCCAAUGGAUUUGUGCCCAAUCCUGCCGUAGACAACUUCCAAUCGCUGAACAACAUUGUCAAUAUGGCCAAUGUUCAGGGAUUGGCUGGCGGCAGUUC
..((((((....((.............))...............((((((.(((((((.....(((.....)))...))))))).))))))..))))))..... (-20.24 = -21.72 +   1.48)

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 10:13:30 2006