Locus 5191

Sequence ID 2R_DroMel_CAF1
Location 16,865,900 – 16,866,003
Length 103
Max. P 0.525211
window8299 window8300

overview

Window 9

Location 16,865,900 – 16,866,003
Length 103
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 90.65
Mean single sequence MFE -28.07
Consensus MFE -21.75
Energy contribution -22.50
Covariance contribution 0.75
Combinations/Pair 1.13
Mean z-score -2.54
Structure conservation index 0.77
SVM decision value -0.03
SVM RNA-class probability 0.516902
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16865900 103 + 20766785
UGUUUGCUCAGCCGC--GAUCGCAAUGCGAAUAUGCGGGGCGACAUUGUCGCCUUAAUAGACAAUUUAAAGCCCAUAAAUAAGCGGAACAAUAAACAAUAAACAA
((((((.....((((--...((((((....)).))))((((.(.((((((.........)))))).)...))))........)))).....))))))........ ( -28.30)
>DroSec_CAF1 16302 93 + 1
UGUUUGCUCAGCCGC--GAACGCAAUGCGAAUAUGCGGGGCGACAUUGUCGCCUUAAUAGACAAUUUAAAGCCCAUAAAUAAGCGGAGCC----------AACAA
((((.((((.(((((--(..(((...)))....))))((((.(.((((((.........)))))).)...))))........)).)))).----------)))). ( -30.20)
>DroSim_CAF1 16417 93 + 1
UGUUUGCUCAGCCGC--GAACGCAAUGCGAAUAUGCGGGGCGACAUUGUCGCCUUAAUAGACAAUUUAAAGCCCAUAAAUAAGCGGAGCC----------AACAA
((((.((((.(((((--(..(((...)))....))))((((.(.((((((.........)))))).)...))))........)).)))).----------)))). ( -30.20)
>DroEre_CAF1 16569 93 + 1
UGUUUGCUCAGCCGC--GAUCGCAAUGCGAAUAUGCGGGGCGACAUUGUCGCCUUAAUAGACAAUUUAAAGCCCAUAAAUAAGCGGAGCC----------AACAA
((((.((((.(((((--(.((((...))))...))))((((.(.((((((.........)))))).)...))))........)).)))).----------)))). ( -32.20)
>DroYak_CAF1 16576 93 + 1
UGUUUUCUCAGCCGC--GAUCGCAAUGCGAAUAUGCGGGGCGACAUUGUCGCCUUAAUAGACAAUUUAAAGCCCAUAAAUAAGCGGAGCC----------AACAA
((((..(((.(((((--(.((((...))))...))))((((.(.((((((.........)))))).)...))))........)).)))..----------)))). ( -28.00)
>DroAna_CAF1 19844 93 + 1
UGUUUUCUUAGCGGUGAGAUCGCAAUGCGAA--UGCGGGACAACAUUGUCGCCUUAAUAGACAAUUUAAAGCCCAUAAAUAAGCAGGGCC----------AACAU
(((((..((((.(((....(((((.......--)))))((((....))))))))))).))))).......((((...........)))).----------..... ( -19.50)
>consensus
UGUUUGCUCAGCCGC__GAUCGCAAUGCGAAUAUGCGGGGCGACAUUGUCGCCUUAAUAGACAAUUUAAAGCCCAUAAAUAAGCGGAGCC__________AACAA
.....((((.(((((....((((...))))....)))((((...((((((.........)))))).....))))........)).))))................ (-21.75 = -22.50 +   0.75)

alignment

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secondary structure

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dotplot

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Window 0

Location 16,865,900 – 16,866,003
Length 103
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 90.65
Mean single sequence MFE -28.30
Consensus MFE -22.67
Energy contribution -23.58
Covariance contribution 0.92
Combinations/Pair 1.12
Mean z-score -2.11
Structure conservation index 0.80
SVM decision value -0.02
SVM RNA-class probability 0.525211
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16865900 103 - 20766785
UUGUUUAUUGUUUAUUGUUCCGCUUAUUUAUGGGCUUUAAAUUGUCUAUUAAGGCGACAAUGUCGCCCCGCAUAUUCGCAUUGCGAUC--GCGGCUGAGCAAACA
..............((((((.((......((((((........))))))...((((((...)))))).(((....((((...))))..--))))).))))))... ( -28.60)
>DroSec_CAF1 16302 93 - 1
UUGUU----------GGCUCCGCUUAUUUAUGGGCUUUAAAUUGUCUAUUAAGGCGACAAUGUCGCCCCGCAUAUUCGCAUUGCGUUC--GCGGCUGAGCAAACA
.((((----------.(((((((((....((((((........))))))..))))).....(((((..((((.........))))...--))))).)))).)))) ( -30.00)
>DroSim_CAF1 16417 93 - 1
UUGUU----------GGCUCCGCUUAUUUAUGGGCUUUAAAUUGUCUAUUAAGGCGACAAUGUCGCCCCGCAUAUUCGCAUUGCGUUC--GCGGCUGAGCAAACA
.((((----------.(((((((((....((((((........))))))..))))).....(((((..((((.........))))...--))))).)))).)))) ( -30.00)
>DroEre_CAF1 16569 93 - 1
UUGUU----------GGCUCCGCUUAUUUAUGGGCUUUAAAUUGUCUAUUAAGGCGACAAUGUCGCCCCGCAUAUUCGCAUUGCGAUC--GCGGCUGAGCAAACA
.((((----------.((((.((......((((((........))))))...((((((...)))))).(((....((((...))))..--))))).)))).)))) ( -31.20)
>DroYak_CAF1 16576 93 - 1
UUGUU----------GGCUCCGCUUAUUUAUGGGCUUUAAAUUGUCUAUUAAGGCGACAAUGUCGCCCCGCAUAUUCGCAUUGCGAUC--GCGGCUGAGAAAACA
.((((----------..(((.((......((((((........))))))...((((((...)))))).(((....((((...))))..--))))).)))..)))) ( -29.20)
>DroAna_CAF1 19844 93 - 1
AUGUU----------GGCCCUGCUUAUUUAUGGGCUUUAAAUUGUCUAUUAAGGCGACAAUGUUGUCCCGCA--UUCGCAUUGCGAUCUCACCGCUAAGAAAACA
.(.((----------(((..(((......((((((........))))))...((.((((....)))))))))--.((((...)))).......))))).)..... ( -20.80)
>consensus
UUGUU__________GGCUCCGCUUAUUUAUGGGCUUUAAAUUGUCUAUUAAGGCGACAAUGUCGCCCCGCAUAUUCGCAUUGCGAUC__GCGGCUGAGCAAACA
................((((.((......((((((........))))))...((((((...)))))).(((....((((...))))....))))).))))..... (-22.67 = -23.58 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:50 2006