Locus 821

Sequence ID 2L_DroMel_CAF1
Location 2,341,142 – 2,341,276
Length 134
Max. P 0.914186
window1334 window1335 window1336

overview

Window 4

Location 2,341,142 – 2,341,241
Length 99
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 87.04
Mean single sequence MFE -19.43
Consensus MFE -15.76
Energy contribution -16.43
Covariance contribution 0.68
Combinations/Pair 1.19
Mean z-score -1.69
Structure conservation index 0.81
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2341142 99 - 22407834
AAACUCUCAGAUACCAUAAAAUAAUGGAUAAGAGUAUGUAGAAAACAAAGUAUCUUAGAUCGA--AUCUAAUGUACUAUAUUGUUGUAUCCCUCCAAAGUU
..(((((...((.((((......)))))).)))))........((((((((((.((((((...--)))))).)))))...)))))................ ( -16.90)
>DroSec_CAF1 47641 101 - 1
AAACUCGUAGAUUCCAUAAAAUAAUGGAUAAGAGUAUGCAGAAAGCAAAGUAUCUUAGAUCGAAAACCAGGUAUACUAUAUUGUUGCCCUGCUCUAAAGUA
..((((......(((((......)))))...))))..((((..(((((((((((((.(........).))).)))))...)))))...))))......... ( -19.60)
>DroSim_CAF1 47733 99 - 1
AAACUCGUAGAUUCCAUAAAAUAAUGGAUAAGAGUAUGCAGAAAGCAAAGUAUCUUAGAUCGA--ACCUAUUGUACUAUAUUGUUGCCCUGCUCUAAAGUA
..((((......(((((......)))))...))))..((((..((((((((((..(((.....--..)))..)))))...)))))...))))......... ( -21.80)
>consensus
AAACUCGUAGAUUCCAUAAAAUAAUGGAUAAGAGUAUGCAGAAAGCAAAGUAUCUUAGAUCGA__ACCUAAUGUACUAUAUUGUUGCCCUGCUCUAAAGUA
..((((......(((((......)))))...))))..((((..((((((((((.((((.........)))).)))))...)))))...))))......... (-15.76 = -16.43 +   0.68) 

alignment

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secondary structure

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dotplot

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Window 5

Location 2,341,178 – 2,341,276
Length 98
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 86.14
Mean single sequence MFE -12.73
Consensus MFE -10.00
Energy contribution -9.67
Covariance contribution -0.33
Combinations/Pair 1.10
Mean z-score -2.70
Structure conservation index 0.79
SVM decision value 1.09
SVM RNA-class probability 0.914186
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2341178 98 + 22407834
-UCGAUCUAAGAUACUUUGUUUUCUACAUACUCUUAUCCAUUAUUUUAUGGUAUCUGAGAGUUUUCUCCUCCCUCAUCUUUUCAUCAAUUGGAGUAUUC----
-..(((..(((((....(((.....))).(((((((.((((......))))....))))))).............)))))...))).............---- ( -14.20)
>DroSec_CAF1 47678 98 + 1
UUCGAUCUAAGAUACUUUGCUUUCUGCAUACUCUUAUCCAUUAUUUUAUGGAAUCUACGAGUUUUCUUCUUCCUUAACUUUUCAUCAAUU-----AUCCAUCA
((((...(((((.....(((.....)))...)))))(((((......))))).....)))).............................-----........ ( -12.20)
>DroSim_CAF1 47769 97 + 1
-UCGAUCUAAGAUACUUUGCUUUCUGCAUACUCUUAUCCAUUAUUUUAUGGAAUCUACGAGUUUUCUUCUUCCUUAACUUUUCAUCAAUA-----AUCCAUCA
-(((...(((((.....(((.....)))...)))))(((((......))))).....)))..............................-----........ ( -11.80)
>consensus
_UCGAUCUAAGAUACUUUGCUUUCUGCAUACUCUUAUCCAUUAUUUUAUGGAAUCUACGAGUUUUCUUCUUCCUUAACUUUUCAUCAAUU_____AUCCAUCA
...(((..(((......(((.....))).((((.(((((((......)))))...)).))))...............)))...)))................. (-10.00 =  -9.67 +  -0.33) 

alignment

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secondary structure

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dotplot

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Window 6

Location 2,341,178 – 2,341,276
Length 98
Sequences 3
Columns 103
Reading direction reverse
Mean pairwise identity 86.14
Mean single sequence MFE -15.70
Consensus MFE -11.76
Energy contribution -11.43
Covariance contribution -0.33
Combinations/Pair 1.11
Mean z-score -1.89
Structure conservation index 0.75
SVM decision value 0.04
SVM RNA-class probability 0.554486
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2341178 98 - 22407834
----GAAUACUCCAAUUGAUGAAAAGAUGAGGGAGGAGAAAACUCUCAGAUACCAUAAAAUAAUGGAUAAGAGUAUGUAGAAAACAAAGUAUCUUAGAUCGA-
----.....((((.(((........)))...))))((((....)))).(((.((((......)))).(((((...(((.....))).....))))).)))..- ( -17.00)
>DroSec_CAF1 47678 98 - 1
UGAUGGAU-----AAUUGAUGAAAAGUUAAGGAAGAAGAAAACUCGUAGAUUCCAUAAAAUAAUGGAUAAGAGUAUGCAGAAAGCAAAGUAUCUUAGAUCGAA
.....(((-----....((((....................((((......(((((......)))))...)))).(((.....)))...))))....)))... ( -14.80)
>DroSim_CAF1 47769 97 - 1
UGAUGGAU-----UAUUGAUGAAAAGUUAAGGAAGAAGAAAACUCGUAGAUUCCAUAAAAUAAUGGAUAAGAGUAUGCAGAAAGCAAAGUAUCUUAGAUCGA-
.....(((-----(...((((....................((((......(((((......)))))...)))).(((.....)))...))))...))))..- ( -15.30)
>consensus
UGAUGGAU_____AAUUGAUGAAAAGUUAAGGAAGAAGAAAACUCGUAGAUUCCAUAAAAUAAUGGAUAAGAGUAUGCAGAAAGCAAAGUAUCUUAGAUCGA_
..............................((...((((..((((......(((((......)))))...)))).(((.....))).....))))...))... (-11.76 = -11.43 +  -0.33) 

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 09:46:23 2006