Locus 1039

Sequence ID 3R_DroMel_CAF1
Location 3,234,955 – 3,235,096
Length 141
Max. P 0.989077
window1683 window1684

overview

Window 3

Location 3,234,955 – 3,235,071
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.62
Mean single sequence MFE -49.15
Consensus MFE -22.56
Energy contribution -23.65
Covariance contribution 1.09
Combinations/Pair 1.44
Mean z-score -2.24
Structure conservation index 0.46
SVM decision value 1.02
SVM RNA-class probability 0.902243
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3234955 116 + 27905053
CUCGCAAGCAGAGGUGGACCUGGAGCACUUUGCCCCAGCUCUUUUUGCCUUGGCGCUCGCCAUGGUGGCCAGUGCGCUGGUCUUUCUGCUGGAACUCUUUCUGCA----CUGGCUACCGG
...((.(((.((((((((.((((.((.....)).)))).)))....)))))...))).))..((((((((((((((..((..((((....))))..))...))))----)))))))))). ( -50.40)
>DroPse_CAF1 2030 120 + 1
CUCCCAGGUGGAGGUGGAUCUGGAGCACUUUGCCCCGGCUCUCUUCGCCCUAGUGCUGGCCAUGAUAGCCAGUGCAUUGGUGUUUCUGCUGGAGCUGAUGUUCUCCAGGCUGGCUCCCUU
.....(((.((((.(((.(((((((.((...((.(((((......((((...(..(((((.......)))))..)...)))).....))))).))....)).)))))))))).))))))) ( -52.30)
>DroEre_CAF1 2324 116 + 1
CUCGCUGGCAGAGGUUGACCUGGAGCACUUUGCCCCGGCACUUUUUGCCCUGGUGCUCGCCAUGCUGGCCAGUGCGCUGGUCUUUCUGCUGGAACUCCUGCUGCA----CUGGCUACCGG
...((((((..(((....))).(((((((.......((((.....))))..))))))))))).))((((((((((((.((..((((....))))..)).)).)))----))))))).... ( -52.20)
>DroMoj_CAF1 1595 112 + 1
CGCCCAGGUGGAGGUGGACCUCAAACACUUUGCGCCCGCGCUCUUCACCCUGCUCCUGGCCAUGCUGGUCAGCGCGUCGGUGUUUCUGCUGGAGCUGCUCUGCGG----CUACCUC----
.(((((((((((((....))))...)))...(((((((.((....((((.(((..((((((.....)))))).)))..)))).....))))).)).)).))).))----)......---- ( -41.60)
>DroAna_CAF1 2178 116 + 1
CUCCCGAGCCGAGGUAGACCUAGAGCACUUUGCCCCUGCCCUUUUCACCCUGGCGCUUGCCAUGGUGGCCAGUGCUCUGGUCUUCUUGCUGGAGGUCUUCAUGCA----CUGGCUACCCG
....((((((.(((..((...((.(((.........))).))..))..))).).)))))....((((((((((((...(..((((.....))))..).....)))----))))))))).. ( -46.10)
>DroPer_CAF1 2016 120 + 1
CUCCCAGGUGGAGGUGGAUCUGGAGCACUUUGCCCCGGCUCUCUUCGCCCUAGUGCUGGCCAUGAUAGCCAGUGCAUUGGUGUUUCUGCUGGAGCUGAUGUUCUCCAGGCUGGCUCCCUU
.....(((.((((.(((.(((((((.((...((.(((((......((((...(..(((((.......)))))..)...)))).....))))).))....)).)))))))))).))))))) ( -52.30)
>consensus
CUCCCAGGCGGAGGUGGACCUGGAGCACUUUGCCCCGGCUCUCUUCGCCCUGGUGCUGGCCAUGAUGGCCAGUGCGCUGGUCUUUCUGCUGGAGCUCAUGUUCCA____CUGGCUACCGG
((((..((((((((((((.((((.((.....)).)))).....))))))(((((((..(((.....)))....)))))))....)))))))))).......................... (-22.56 = -23.65 +   1.09) 

alignment

Postscript

secondary structure

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dotplot

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Window 4

Location 3,234,995 – 3,235,096
Length 101
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 89.44
Mean single sequence MFE -42.65
Consensus MFE -36.71
Energy contribution -36.72
Covariance contribution 0.00
Combinations/Pair 1.19
Mean z-score -3.01
Structure conservation index 0.86
SVM decision value 2.15
SVM RNA-class probability 0.989077
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3234995 101 + 27905053
CUUUUUGCCUUGGCGCUCGCCAUGGUGGCCAGUGCGCUGGUCUUUCUGCUGGAACUCUUUCUGCACUGGCUACCGGACUUUCGAAGGAGGUUGGGUACCAU
.....(((((((((....))))((((((((((((((..((..((((....))))..))...))))))))))))))((((((.....))))))))))).... ( -42.60)
>DroSec_CAF1 2304 101 + 1
CUUUUUGCCCUGGCGCUCGCCAUGGUGGCCAGUGCGCUGGUCUUUCUGCUGGAACUAUUUUUGCACUGGCUACCGGACUUUCCAAGGAGGUUGGGUACCGU
.....(((((((((....))))((((((((((((((..(((..(((.....)))..)))..))))))))))))))((((((.....))))))))))).... ( -44.30)
>DroSim_CAF1 2305 101 + 1
CUUUUUGCCCUGGCGCUCGCCAUGGUGGCCAGUGCGCUGGUCUUUCUGCUGGAACUCUUUUUGCACUGGCUACCGGACUUUCGAAGGAGGUUGGGUACCAU
.....(((((((((....))))((((((((((((((..((..((((....))))..))...))))))))))))))((((((.....))))))))))).... ( -45.10)
>DroEre_CAF1 2364 101 + 1
CUUUUUGCCCUGGUGCUCGCCAUGCUGGCCAGUGCGCUGGUCUUUCUGCUGGAACUCCUGCUGCACUGGCUACCGGACUUUCGAAGGAGGUUGGGAACCAU
......((..((((....)))).))((((((((((((.((..((((....))))..)).)).))))))))))((.((((((.....)))))).))...... ( -40.60)
>DroYak_CAF1 2382 101 + 1
AUUUUUGCCCUGGUGCUCGCCAUGGUGGCCAGUGCGCUGGUCUUUUUGUUGGAACUCUUUCUGCACUGGCUAGCGGACUUUCGAAGGAGGUUGGGAACCAU
..........((((.((((((.((.(((((((((((..((..((((....))))..))...))))))))))).)).....((....)))).)))).)))). ( -34.70)
>DroAna_CAF1 2218 101 + 1
CUUUUCACCCUGGCGCUUGCCAUGGUGGCCAGUGCUCUGGUCUUCUUGCUGGAGGUCUUCAUGCACUGGCUACCCGACUUUCGGGCCAGGCUGGGAGCCAU
........((..((.((.(((..((((((((((((...(..((((.....))))..).....))))))))))))((.....))))).))))..))...... ( -48.60)
>consensus
CUUUUUGCCCUGGCGCUCGCCAUGGUGGCCAGUGCGCUGGUCUUUCUGCUGGAACUCUUUCUGCACUGGCUACCGGACUUUCGAAGGAGGUUGGGAACCAU
.......(((((((....)))).(((((((((((((..((..((((....))))..))...))))))))))))).((((((.....)))))))))...... (-36.71 = -36.72 +   0.00) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:03 2006