Locus 7974

Sequence ID X_DroMel_CAF1
Location 19,866,997 – 19,867,102
Length 105
Max. P 0.725664
window13081 window13082

overview

Window 1

Location 19,866,997 – 19,867,102
Length 105
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 83.74
Mean single sequence MFE -35.12
Consensus MFE -25.63
Energy contribution -27.44
Covariance contribution 1.81
Combinations/Pair 1.03
Mean z-score -1.74
Structure conservation index 0.73
SVM decision value 0.41
SVM RNA-class probability 0.725664
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19866997 105 + 22224390
AGUUAUUGUCUGAAUGGGUGCACCAGAUUGAUGGGUGGGUGC-UGGGUGCCAGGAUACGAG------A--------GGAUACUAGGCAACCAGGGGCCGGUAGACAAAGGGAAUCGCGAC
.((.(((.(((...((..(((.(((......))).(((.(.(-(((.((((((....(...------.--------)....)).)))).)))).).))))))..)).))).))).))... ( -33.20)
>DroSec_CAF1 24710 112 + 1
AGUUAUUGUCUGAAUGGGUGCACCAGAUUGAUGGGAGGGUGCCUGGGUGCCAGGAUACGAGGACACUA--------GGAUACUAGGCAACCAGGGGCCGGUAGACAAAGGGAAUCGCGAC
.((.(((.(((...((..(((.(((......)))...(((.(((((.((((.((((...((....)).--------..)).)).)))).))))).))).)))..)).))).))).))... ( -37.30)
>DroSim_CAF1 15840 120 + 1
AGUUAUUGUCUGAAUGGGUGCACCAGAUUGAUGGGAGGGUGCCUGGGUGCCAGGAUACGAGGAUACUAGGAUACUAGGAUACUAGGCAACCAGGGGCCGGUAGACAAAGGGAAUCGCGAC
.((.(((.(((...((..(((.(((......)))...(((.(((((.((((.(....).((....((((....))))....)).)))).))))).))).)))..)).))).))).))... ( -39.80)
>DroEre_CAF1 2339 95 + 1
AGUUAUUGUCUGAAUGGGUGCACCAGAUGGAUGGUGGGGUGC--------CAGGCUACCAG----------------GAUACU-GGAUACCAGGGACCGGUAGACAAAGGGAAUCGCGAA
.....(((((((........(((((......))))).(((.(--------(.((.((((((----------------....))-)).)))).)).)))..)))))))............. ( -30.20)
>consensus
AGUUAUUGUCUGAAUGGGUGCACCAGAUUGAUGGGAGGGUGC_UGGGUGCCAGGAUACGAG______A________GGAUACUAGGCAACCAGGGGCCGGUAGACAAAGGGAAUCGCGAC
.((.(((.(((...((..(((.(((......)))...(((.(((((.((((((............................)).)))).))))).))).)))..)).))).))).))... (-25.63 = -27.44 +   1.81)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 19,866,997 – 19,867,102
Length 105
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 83.74
Mean single sequence MFE -25.25
Consensus MFE -15.99
Energy contribution -18.25
Covariance contribution 2.25
Combinations/Pair 1.00
Mean z-score -1.72
Structure conservation index 0.63
SVM decision value 0.04
SVM RNA-class probability 0.555233
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19866997 105 - 22224390
GUCGCGAUUCCCUUUGUCUACCGGCCCCUGGUUGCCUAGUAUCC--------U------CUCGUAUCCUGGCACCCA-GCACCCACCCAUCAAUCUGGUGCACCCAUUCAGACAAUAACU
.............((((((...((....(((.((((..((((..--------.------...))))...)))).)))-(((((.............)))))..))....))))))..... ( -22.92)
>DroSec_CAF1 24710 112 - 1
GUCGCGAUUCCCUUUGUCUACCGGCCCCUGGUUGCCUAGUAUCC--------UAGUGUCCUCGUAUCCUGGCACCCAGGCACCCUCCCAUCAAUCUGGUGCACCCAUUCAGACAAUAACU
.............((((((...((..(((((.((((.((.((.(--------.((....)).).)).)))))).)))))..))....((((.....)))).........))))))..... ( -25.40)
>DroSim_CAF1 15840 120 - 1
GUCGCGAUUCCCUUUGUCUACCGGCCCCUGGUUGCCUAGUAUCCUAGUAUCCUAGUAUCCUCGUAUCCUGGCACCCAGGCACCCUCCCAUCAAUCUGGUGCACCCAUUCAGACAAUAACU
.............((((((...((..(((((.((((..((((....((((....))))....))))...)))).)))))..))....((((.....)))).........))))))..... ( -26.50)
>DroEre_CAF1 2339 95 - 1
UUCGCGAUUCCCUUUGUCUACCGGUCCCUGGUAUCC-AGUAUC----------------CUGGUAGCCUG--------GCACCCCACCAUCCAUCUGGUGCACCCAUUCAGACAAUAACU
.............((((((...(((.((.(((..((-((....----------------))))..))).)--------).))).(((((......))))).........))))))..... ( -26.20)
>consensus
GUCGCGAUUCCCUUUGUCUACCGGCCCCUGGUUGCCUAGUAUCC________U______CUCGUAUCCUGGCACCCA_GCACCCUCCCAUCAAUCUGGUGCACCCAUUCAGACAAUAACU
.............((((((...((...((((.((((..((((....................))))...)))).))))(((((.............)))))..))....))))))..... (-15.99 = -18.25 +   2.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:08 2006