Locus 5954

Sequence ID 2L_DroMel_CAF1
Location 16,775,816 – 16,775,956
Length 140
Max. P 0.994090
window9459 window9460

overview

Window 9

Location 16,775,816 – 16,775,919
Length 103
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 72.07
Mean single sequence MFE -26.60
Consensus MFE -6.32
Energy contribution -8.90
Covariance contribution 2.58
Combinations/Pair 1.08
Mean z-score -1.68
Structure conservation index 0.24
SVM decision value 0.19
SVM RNA-class probability 0.628163
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16775816 103 - 22407834
CUCAAUCAAACCCUGACGAAUU--GUGAAAUUCGAUGGUGCUUGAGU-CAAGUUAAGCGGACUGGGAAACAUUGUCCAGAUUCAAACAAUAGAGUGCAGAUGAUGU
.(((.((..((.(((.((((((--....))))))....((.((((((-(..(.....)((((..(....)...)))).))))))).)).))).))...)))))... ( -24.90)
>DroSec_CAF1 5448 102 - 1
CUCAAUCAAACCCUGACGAAUU--GUGAAAUUCGAUGGUGCUUGAGU-CAAGUUAAGCGGACUGGGAAACAUUGUCCAGAUUCAAGCA-UAAAGUGCAGAUGAUGU
....((((....(((.((((((--....))))))...((((((((((-(..(.....)((((..(....)...)))).))))))))))-)......))).)))).. ( -32.50)
>DroSim_CAF1 5981 104 - 1
NNNNNNNNNNNNNNNNNNNNNN--NNNNNNNNNNNNNNNNNNNGAUUCCAAGUUAAGCGGACUGGGAAACAUUUUCCAGAUUCAAGCAGUAAAGUGCAGAUGAUGU
......................--...........................((((...((((((((((....))))))).)))..(((......)))...)))).. ( -11.50)
>DroEre_CAF1 5462 102 - 1
CUCAAUCAAGCCCU-ACGAACU--ACGAAAUUCGAUAGUGCUUGAGU-CAGGUCCAGCAGAUUGGGAAACAUUCUGCGGACUGAAGCAGUAGAGUGCAGAUGAUGU
.....((((((.((-(((((..--......)))).))).))))))((-(((((((.(((((...(....)..))))))))))...(((......)))...)))).. ( -35.30)
>DroYak_CAF1 5411 105 - 1
CUCAAUCAAACCCUGACGAAUUCGAUGAAAUUCGAUAGGGCUUGAGU-CGAGUUAAGCAGUCAGGAAGACAUUGUCGAGAUUGAAGCAGUAGAGUGCAGAUGAUGU
.((((((....((((((....((((......))))....((((((..-....)))))).))))))..(((...)))..)))))).(((......)))......... ( -28.80)
>consensus
CUCAAUCAAACCCUGACGAAUU__AUGAAAUUCGAUAGUGCUUGAGU_CAAGUUAAGCGGACUGGGAAACAUUGUCCAGAUUCAAGCAGUAGAGUGCAGAUGAUGU
..........(((...((((((......)))))).....((((((.......)))))).....)))..((((((((...(((..........)))...)))))))) ( -6.32 =  -8.90 +   2.58)

alignment

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secondary structure

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dotplot

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Window 0

Location 16,775,849 – 16,775,956
Length 107
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 86.22
Mean single sequence MFE -31.15
Consensus MFE -27.02
Energy contribution -26.15
Covariance contribution -0.87
Combinations/Pair 1.23
Mean z-score -2.84
Structure conservation index 0.87
SVM decision value 2.45
SVM RNA-class probability 0.994090
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16775849 107 + 22407834
AAUGUUUCCCAGUCCGCUUAACUUGACUCAAGCACCAUCGAAUUUCAC--AAUUCGUCAGGGUUUGAUUGAGGUUUAGGCCAAUCGGUAGAUAUUAUCAAGACUCACUU
(((((((.((.((..(((((((((.(.((((((.((..((((((....--))))))...)))))))).).))).))))))..)).)).))))))).............. ( -27.20)
>DroSec_CAF1 5480 107 + 1
AAUGUUUCCCAGUCCGCUUAACUUGACUCAAGCACCAUCGAAUUUCAC--AAUUCGUCAGGGUUUGAUUGAGGUUUAGGCCAAUCGGUAGAUAUUAUCAAGACUCACUU
(((((((.((.((..(((((((((.(.((((((.((..((((((....--))))))...)))))))).).))).))))))..)).)).))))))).............. ( -27.20)
>DroEre_CAF1 5495 103 + 1
AAUGUUUCCCAAUCUGCUGGACCUGACUCAAGCACUAUCGAAUUUCGU--AGUUCGU-AGGGCUUGAUUGAGGUUUUGGCCAAU-GGUAGAUAUUGUCAAGACU--CUG
(((((((.(((....((..(((((.(.((((((.(((.((((((....--)))))))-)).)))))).).))).))..))...)-)).))))))).........--... ( -33.30)
>DroYak_CAF1 5444 106 + 1
AAUGUCUUCCUGACUGCUUAACUCGACUCAAGCCCUAUCGAAUUUCAUCGAAUUCGUCAGGGUUUGAUUGAGGUUUUGGCCAAUCGGUAGAUAUUAUCUAGAC---CUC
(((((((..((((..(((...(((((.(((((((((..(((((((....)))))))..)))))))))))))).....)))...)))).)))))))........---... ( -36.90)
>consensus
AAUGUUUCCCAGUCCGCUUAACUUGACUCAAGCACCAUCGAAUUUCAC__AAUUCGUCAGGGUUUGAUUGAGGUUUAGGCCAAUCGGUAGAUAUUAUCAAGACU__CUU
(((((((.((.((..(((((((((.(.((((((.((..((((((......))))))...)))))))).).))).))))))..)).)).))))))).............. (-27.02 = -26.15 +  -0.87)

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 11:57:23 2006