Locus 7175

Sequence ID 2L_DroMel_CAF1
Location 20,079,062 – 20,079,157
Length 95
Max. P 0.933365
window11454 window11455

overview

Window 4

Location 20,079,062 – 20,079,157
Length 95
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 78.45
Mean single sequence MFE -32.83
Consensus MFE -23.56
Energy contribution -25.58
Covariance contribution 2.03
Combinations/Pair 1.04
Mean z-score -1.78
Structure conservation index 0.72
SVM decision value 1.11
SVM RNA-class probability 0.916031
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20079062 95 + 22407834
GGGCCGUCGAACAGCUGAU-UUGACUACGUGACGUCGCUGCGUCUACGUUCACGACGUCACGUCGCCACCGAUGGCGCCCCUCCCCACGCUCGCAC
((((.(((((((....).)-))))).(((((((((((..(((....)))...))))))))))).((((....))))))))................ ( -38.10)
>DroSec_CAF1 351 95 + 1
GGGCCUUCGAACAGCUGAU-UUGACUACGUGACGUCGCUGCGUCUACGUUCACGACGUCACGUCGCCACCGAUGGCGUCCCUUCCCUCGCUACCUG
(((...((((((....).)-))))..(((((((((((..(((....)))...)))))))))))(((((....))))).)))............... ( -32.10)
>DroSim_CAF1 351 95 + 1
GGGCCUUCGAACAGCUGAU-UUGACUACGUGACGUCGCUGCGUCUACGUUCACGACGUCACGUCGCCACCGAUGGCGCCCCUCCCCUCGCUACCAC
((((..((((((....).)-))))..(((((((((((..(((....)))...))))))))))).((((....))))))))................ ( -34.60)
>DroEre_CAF1 345 90 + 1
UGGCCGUCGAACAGCUGUU-GUGACUACGUGACGUCGCUGCGUCUACGUUCGCGACGUCACGUCGCCAACGAUGGAUCCCCUUCCCUC-----CAC
((((.(((((((....)))-.)))).((((((((((((.(((....)))..)))))))))))).))))..((.(((......))).))-----... ( -38.50)
>DroYak_CAF1 350 90 + 1
UGGCCGUCGGACAGCUGAU-UUGACUACGUGACGUCGCUGCGUCUACGUUCACGACGUCACGUCGCCAAUGAUGGCUCCCCUCCGCUC-----CCC
.((..(.((((.(((((..-(((.(.(((((((((((..(((....)))...))))))))))).).)))...)))))....)))))..-----)). ( -33.50)
>DroAna_CAF1 461 84 + 1
GCCCUGCCGCUCAGCUGAUUUUGAGGUCGUGACGUAGC------UACGCUCUCGACGUCACGUCGUCACCCCUCGCAUCUGUAUCCG------UCA
.....(.((..(((.((....(((.(.(((((((((((------...)))....)))))))).).))).......)).)))....))------.). ( -20.20)
>consensus
GGGCCGUCGAACAGCUGAU_UUGACUACGUGACGUCGCUGCGUCUACGUUCACGACGUCACGUCGCCACCGAUGGCGCCCCUCCCCUC_____CAC
..(((((((..(((......)))...(((((((((((..(((....)))...)))))))))))......))))))).................... (-23.56 = -25.58 +   2.03)

alignment

Postscript

secondary structure

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dotplot

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Window 5

Location 20,079,062 – 20,079,157
Length 95
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 78.45
Mean single sequence MFE -38.33
Consensus MFE -26.82
Energy contribution -27.55
Covariance contribution 0.73
Combinations/Pair 1.23
Mean z-score -1.94
Structure conservation index 0.70
SVM decision value 1.23
SVM RNA-class probability 0.933365
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20079062 95 - 22407834
GUGCGAGCGUGGGGAGGGGCGCCAUCGGUGGCGACGUGACGUCGUGAACGUAGACGCAGCGACGUCACGUAGUCAA-AUCAGCUGUUCGACGGCCC
((.(((((((...((..(((((((....)))).((((((((((((...((....))..)))))))))))).)))..-.)).)).)))))))..... ( -41.80)
>DroSec_CAF1 351 95 - 1
CAGGUAGCGAGGGAAGGGACGCCAUCGGUGGCGACGUGACGUCGUGAACGUAGACGCAGCGACGUCACGUAGUCAA-AUCAGCUGUUCGAAGGCCC
..(((..((((.((...(((((((....)))).((((((((((((...((....))..)))))))))))).)))..-.)).....))))...))). ( -39.10)
>DroSim_CAF1 351 95 - 1
GUGGUAGCGAGGGGAGGGGCGCCAUCGGUGGCGACGUGACGUCGUGAACGUAGACGCAGCGACGUCACGUAGUCAA-AUCAGCUGUUCGAAGGCCC
..(((..((((.((..((.(((((....)))))((((((((((((...((....))..))))))))))))......-.))..)).))))...))). ( -42.20)
>DroEre_CAF1 345 90 - 1
GUG-----GAGGGAAGGGGAUCCAUCGUUGGCGACGUGACGUCGCGAACGUAGACGCAGCGACGUCACGUAGUCAC-AACAGCUGUUCGACGGCCA
...-----((.(((......))).))((.(((.((((((((((((...((....))..)))))))))))).)))))-....((((.....)))).. ( -37.00)
>DroYak_CAF1 350 90 - 1
GGG-----GAGCGGAGGGGAGCCAUCAUUGGCGACGUGACGUCGUGAACGUAGACGCAGCGACGUCACGUAGUCAA-AUCAGCUGUCCGACGGCCA
..(-----(..((..(((.(((.....(((((.((((((((((((...((....))..)))))))))))).)))))-....))).)))..)).)). ( -43.50)
>DroAna_CAF1 461 84 - 1
UGA------CGGAUACAGAUGCGAGGGGUGACGACGUGACGUCGAGAGCGUA------GCUACGUCACGACCUCAAAAUCAGCUGAGCGGCAGGGC
...------........(((..((((.((((((..((.(((.(....)))).------))..))))))..))))...))).(((....)))..... ( -26.40)
>consensus
GUG_____GAGGGGAGGGGCGCCAUCGGUGGCGACGUGACGUCGUGAACGUAGACGCAGCGACGUCACGUAGUCAA_AUCAGCUGUUCGACGGCCC
............((.((....)).))..((((.((((((((((((...((....))..)))))))))))).))))......((((.....)))).. (-26.82 = -27.55 +   0.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:17 2006