Locus 2149

Sequence ID 2L_DroMel_CAF1
Location 5,792,611 – 5,792,762
Length 151
Max. P 0.980156
window3474 window3475 window3476

overview

Window 4

Location 5,792,611 – 5,792,722
Length 111
Sequences 3
Columns 111
Reading direction forward
Mean pairwise identity 84.64
Mean single sequence MFE -30.70
Consensus MFE -22.76
Energy contribution -23.43
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -3.08
Structure conservation index 0.74
SVM decision value 1.55
SVM RNA-class probability 0.962990
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5792611 111 + 22407834
GAACACAUUUUUUGAGGGAAAACUUUUCGUUUUCCUAAUUCACGGCUGUCACUUUUCGCGUCGAGCGGGACGAAGAAAAAAAAACGUGACAAGCUGACGUUAUCAAUAAAA
.......(((.((((((((((((.....))))))))......(((((((((((((((.((((......))))..)))))......))))).)))))......)))).))). ( -30.80)
>DroSec_CAF1 29697 96 + 1
GGAUACAUUUUUUGAGGGAAAACUUUUCGUUUUCCUAAUUCACGCCUGUCACUUUUCGCGUCAAGCGGGACGAAGUAAAAAA-AAGUGACAAGCUGA--------------
...............((((((((.....))))))))...(((.((.((((((((((..((((......))))........))-)))))))).)))))-------------- ( -27.50)
>DroSim_CAF1 32224 107 + 1
GGAUACAUUAUUUGAGGGAAAACUUUUCGUUUUCCUAAUUCACGCCUGUCACUUUUCCCGUCAAGCGGGACGAAG---AAAA-AAGUGACAAGCUGACGUUAUCAAUAAAA
.(((((.........((((((((.....))))))))...(((.((.((((((((((((((.....))))).....---...)-)))))))).))))).).))))....... ( -33.80)
>consensus
GGAUACAUUUUUUGAGGGAAAACUUUUCGUUUUCCUAAUUCACGCCUGUCACUUUUCGCGUCAAGCGGGACGAAG_AAAAAA_AAGUGACAAGCUGACGUUAUCAAUAAAA
...............((((((((.....))))))))...(((.((.((((((((....((((......))))...........)))))))).))))).............. (-22.76 = -23.43 +   0.67)

alignment

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secondary structure

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dotplot

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Window 5

Location 5,792,611 – 5,792,722
Length 111
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 84.64
Mean single sequence MFE -30.73
Consensus MFE -24.29
Energy contribution -24.96
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -3.29
Structure conservation index 0.79
SVM decision value 1.85
SVM RNA-class probability 0.980156
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5792611 111 - 22407834
UUUUAUUGAUAACGUCAGCUUGUCACGUUUUUUUUUCUUCGUCCCGCUCGACGCGAAAAGUGACAGCCGUGAAUUAGGAAAACGAAAAGUUUUCCCUCAAAAAAUGUGUUC
.....((((..(((...(((.(((((......(((((..((((......)))).))))))))))))))))......(((((((.....))))))).))))........... ( -24.90)
>DroSec_CAF1 29697 96 - 1
--------------UCAGCUUGUCACUU-UUUUUUACUUCGUCCCGCUUGACGCGAAAAGUGACAGGCGUGAAUUAGGAAAACGAAAAGUUUUCCCUCAAAAAAUGUAUCC
--------------((((((((((((((-(((.......((((......)))).)))))))))))))).)))....(((((((.....)))))))................ ( -30.90)
>DroSim_CAF1 32224 107 - 1
UUUUAUUGAUAACGUCAGCUUGUCACUU-UUUU---CUUCGUCCCGCUUGACGGGAAAAGUGACAGGCGUGAAUUAGGAAAACGAAAAGUUUUCCCUCAAAUAAUGUAUCC
.....((((.....((((((((((((((-((..---(.(((.......))).)..))))))))))))).)))....(((((((.....))))))).))))........... ( -36.40)
>consensus
UUUUAUUGAUAACGUCAGCUUGUCACUU_UUUUUU_CUUCGUCCCGCUUGACGCGAAAAGUGACAGGCGUGAAUUAGGAAAACGAAAAGUUUUCCCUCAAAAAAUGUAUCC
..............((((((((((((((...........((((......))))....))))))))))).)))....(((((((.....)))))))................ (-24.29 = -24.96 +   0.67)

alignment

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secondary structure

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dotplot

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Window 6

Location 5,792,651 – 5,792,762
Length 111
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 84.04
Mean single sequence MFE -27.87
Consensus MFE -18.79
Energy contribution -19.79
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.85
Structure conservation index 0.67
SVM decision value -0.02
SVM RNA-class probability 0.525400
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5792651 111 - 22407834
UAUUCGAUUUUAUAUUGAACUCAAGUGCGCUUUCAGUGUGUUUUAUUGAUAACGUCAGCUUGUCACGUUUUUUUUUCUUCGUCCCGCUCGACGCGAAAAGUGACAGCCGUG
...(((((..(((((((((..(......)..)))))))))....)))))..(((...(((.(((((......(((((..((((......)))).)))))))))))))))). ( -23.90)
>DroSec_CAF1 29737 94 - 1
AAUUCGAUUUUAUAUUGAACUCAAGUGCGCUUUCAGUG----------------UCAGCUUGUCACUU-UUUUUUACUUCGUCCCGCUUGACGCGAAAAGUGACAGGCGUG
..((((((.....)))))).......((((.....)))----------------)..(((((((((((-(((.......((((......)))).))))))))))))))... ( -26.40)
>DroSim_CAF1 32264 107 - 1
UAUUCGAUUUUAUAUUGAACUCAAGUGCGCUCUCAGUGUGUUUUAUUGAUAACGUCAGCUUGUCACUU-UUUU---CUUCGUCCCGCUUGACGGGAAAAGUGACAGGCGUG
..((((((.....)))))).((((..((((.......))))....))))........(((((((((((-((..---(.(((.......))).)..)))))))))))))... ( -33.30)
>consensus
UAUUCGAUUUUAUAUUGAACUCAAGUGCGCUUUCAGUGUGUUUUAUUGAUAACGUCAGCUUGUCACUU_UUUUUU_CUUCGUCCCGCUUGACGCGAAAAGUGACAGGCGUG
..((((((.....)))))).......((((.....))))..................(((((((((((...........((((......))))....)))))))))))... (-18.79 = -19.79 +   1.00)

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 10:20:54 2006