Locus 1611

Sequence ID 2L_DroMel_CAF1
Location 4,335,705 – 4,335,824
Length 119
Max. P 0.549505
window2587 window2588

overview

Window 7

Location 4,335,705 – 4,335,824
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 81.36
Mean single sequence MFE -22.88
Consensus MFE -18.08
Energy contribution -18.32
Covariance contribution 0.24
Combinations/Pair 1.12
Mean z-score -1.45
Structure conservation index 0.79
SVM decision value 0.03
SVM RNA-class probability 0.549505
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4335705 119 + 22407834
GAGUUGUAUUGGUUCUGAGCCACUUGUAUAGAAUUCCCGCCUUUCCCCAUAAGAAAUU-CUCUAACUGAUCCGUUUGAUAACAUUUCACCCCAGUGUAGGAGUAAGUCGGAAUUCUCAUC
....(((((((((.....))))...)))))(((((((.((..((((.....(((....-.))).((((....(..(((.......)))..)))))...))))...)).)))))))..... ( -20.80)
>DroSec_CAF1 4661 97 + 1
----------------------UUUGUAGAGAAUUUCGGACUUUCCCCAUAAGAAAUU-CUCUAACUGAUCCGAUUGAUAACAUUUCACCCCAGUGUAGGAGUAAGUCGGAAUUCUCAUC
----------------------....(((((((((((((......)).....))))))-))))).....(((((((.((..(....(((....)))..)..)).)))))))......... ( -22.50)
>DroSim_CAF1 5297 97 + 1
----------------------CUUGUAGAGAAUUUCGGACUUUCCCCAUAAGAAAUU-CUCUAACUGAUCCGAUUGAUAACAUUUCACCCCAGUGUAGGAGUAAGUCGGAAUUCUCAUC
----------------------....(((((((((((((......)).....))))))-))))).....(((((((.((..(....(((....)))..)..)).)))))))......... ( -22.50)
>DroEre_CAF1 4667 96 + 1
----------------------CUUGCAGAGGAU-CCAGACUUUCCCCAUACGUUUUUUUUUCAACUGAUCCGCUUGAUAACAUUUCACCCCAGUGUAGGAGUA-GUCGGAAUUCUCAUC
----------------------......((((((-((.((((((((..(((((((........))).........(((.......))).....)))).)))).)-))))).))))))... ( -19.70)
>DroYak_CAF1 4915 97 + 1
----------------------CUUGUAGAGAAUUCCAGACUUUCCCCAUAAAGACUU-UUAUAGCUGAUUCGGCUGAUAACAUUUCACCCCAGUGUAGGAGUAAGUCGGAAUUCUCAUC
----------------------......(((((((((.(((((...........((((-(((((.(((....((.(((.......))).))))))))))))))))))))))))))))... ( -28.90)
>consensus
______________________CUUGUAGAGAAUUCCAGACUUUCCCCAUAAGAAAUU_CUCUAACUGAUCCGAUUGAUAACAUUUCACCCCAGUGUAGGAGUAAGUCGGAAUUCUCAUC
............................(((((((((.(((((.(.((....................(((.....))).(((((.......))))).)).).))))))))))))))... (-18.08 = -18.32 +   0.24)

alignment

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secondary structure

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dotplot

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Window 8

Location 4,335,705 – 4,335,824
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 81.36
Mean single sequence MFE -26.02
Consensus MFE -18.66
Energy contribution -20.06
Covariance contribution 1.40
Combinations/Pair 1.00
Mean z-score -1.52
Structure conservation index 0.72
SVM decision value 0.02
SVM RNA-class probability 0.541814
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4335705 119 - 22407834
GAUGAGAAUUCCGACUUACUCCUACACUGGGGUGAAAUGUUAUCAAACGGAUCAGUUAGAG-AAUUUCUUAUGGGGAAAGGCGGGAAUUCUAUACAAGUGGCUCAGAACCAAUACAACUC
....((((((((...(((((((......))))))).......((.(((......))).))(-..(((((.....)))))..).)))))))).......(((.......)))......... ( -25.40)
>DroSec_CAF1 4661 97 - 1
GAUGAGAAUUCCGACUUACUCCUACACUGGGGUGAAAUGUUAUCAAUCGGAUCAGUUAGAG-AAUUUCUUAUGGGGAAAGUCCGAAAUUCUCUACAAA----------------------
.....((..(((((.(((((((......)))))))..((....)).))))))).((.((((-((((((....(((.....)))))))))))))))...---------------------- ( -26.40)
>DroSim_CAF1 5297 97 - 1
GAUGAGAAUUCCGACUUACUCCUACACUGGGGUGAAAUGUUAUCAAUCGGAUCAGUUAGAG-AAUUUCUUAUGGGGAAAGUCCGAAAUUCUCUACAAG----------------------
.....((..(((((.(((((((......)))))))..((....)).))))))).((.((((-((((((....(((.....)))))))))))))))...---------------------- ( -26.40)
>DroEre_CAF1 4667 96 - 1
GAUGAGAAUUCCGAC-UACUCCUACACUGGGGUGAAAUGUUAUCAAGCGGAUCAGUUGAAAAAAAAACGUAUGGGGAAAGUCUGG-AUCCUCUGCAAG----------------------
...(((.((((.(((-(.(((((((.(((.(((((....)))))...)))....(((........)))))).))))..)))).))-)).)))......---------------------- ( -21.90)
>DroYak_CAF1 4915 97 - 1
GAUGAGAAUUCCGACUUACUCCUACACUGGGGUGAAAUGUUAUCAGCCGAAUCAGCUAUAA-AAGUCUUUAUGGGGAAAGUCUGGAAUUCUCUACAAG----------------------
...((((((((((((((..(((.......((.(((.......))).)).......((((((-(....))))))))))))))).)))))))))......---------------------- ( -30.00)
>consensus
GAUGAGAAUUCCGACUUACUCCUACACUGGGGUGAAAUGUUAUCAAUCGGAUCAGUUAGAG_AAUUUCUUAUGGGGAAAGUCCGGAAUUCUCUACAAG______________________
...((((((((((((((.((((..(((....)))...((....))...........................)))).))))).)))))))))............................ (-18.66 = -20.06 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:39 2006