Locus 1884

Sequence ID 2R_DroMel_CAF1
Location 7,107,650 – 7,107,758
Length 108
Max. P 0.963541
window3119 window3120

overview

Window 9

Location 7,107,650 – 7,107,758
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.35
Mean single sequence MFE -55.45
Consensus MFE -26.19
Energy contribution -26.50
Covariance contribution 0.31
Combinations/Pair 1.34
Mean z-score -2.20
Structure conservation index 0.47
SVM decision value 0.85
SVM RNA-class probability 0.866615
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7107650 108 + 20766785
UGGUGGUGAUGGGCUCCCGCCGCAGCCGCCGCUGCUGCUGCCAUGG---AAUAACGGUCAUUGGCAGAG---------GCGCCUCCAGCUUGUGGCAAUAAACCCAAUCCGGCAGCAGCG
.(((((((.(((((....))).))..)))))))(((((((((..((---(.....(((.((((.((.((---------((.......)))).)).))))..)))...)))))))))))). ( -51.60)
>DroVir_CAF1 174016 114 + 1
UGGUGAUGGUGGGCGCCAGCAGCUGCCGCAGCUGCUGCGGCCAUUGAUGAGUAACGAUCAUUGGCAGCC------GCUGCGCCGGCAGCAUUUGGUAAUAGGCCCAAGCCGGCGGCCGCG
........((((.((((.((.(((((((..((.((.(((((..(..((((.......))))..)..)))------)).)))))))))))..((((........)))))).)))).)))). ( -57.90)
>DroPse_CAF1 143120 108 + 1
UGAUGAUGAUGGGCGCCGGCCGCCGCCGCUGCUGCAGCGGCCAUCG---AGUAGCGGUCAUUGGCAGAG---------CCGCCACCCGUUUGCGGAAGGAGGCCCAGGCCAGCGGCGGCG
...........(((....)))((((((((((((((..((.....))---.)))))((((..(((....(---------((.((..(((....)))..)).))))))))))))))))))). ( -51.70)
>DroGri_CAF1 182606 120 + 1
UGAUGAUGAUGGGCGCCGGCCGCUGCUGCCGCUGCCGCUGCCAUCGAUGAGUAACGGUCAUUGGCAGCGGCAGCUGCUGCGCCCGCAGCAUUUGGCAGCAGACCCAAGCCGGCAGCGGCG
............((((((((..(((((((((((((((((((((..(((........)))..)))))))))))))((((((....))))))...))))))))......)))))).)).... ( -73.40)
>DroWil_CAF1 217179 108 + 1
UGAUGAUGAUGGGCUCCUGCCGCUGCGGCUGCUGCCGCGGCCAUUG---AAUAACGAUCGUUGGCAGCG---------GCUCCAGCUGUAUUUGGCAAAAGACCUAAGCCGGCGGCAGCG
................(((((((((((((((..(((((.((((.((---(.......))).)))).)))---------))..)))))))....(((...........))))))))))).. ( -49.80)
>DroAna_CAF1 140117 108 + 1
UGGUGAUGAUGCGCUCCCGCUGCCGCCGCUGCUGCUGCGGCCAUGG---AAUACCGAUCAUUGGCAGCU---------GCGCCAGCUGCAUUUGGGAGCAGGCCCAAGCCGGCGGCUGCG
..........((((....(((((((((((.......)))))..(((---....)))......)))))).---------))))(((((((.((((((......))))))...))))))).. ( -48.30)
>consensus
UGAUGAUGAUGGGCGCCCGCCGCUGCCGCUGCUGCUGCGGCCAUCG___AAUAACGAUCAUUGGCAGCG_________GCGCCAGCAGCAUUUGGCAACAGACCCAAGCCGGCGGCAGCG
((.(((((((.(((....)))(((((.((....)).)))))...............))))))).)).............(((.(((.((.(((((........)))))...)).)))))) (-26.19 = -26.50 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 7,107,650 – 7,107,758
Length 108
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 76.35
Mean single sequence MFE -53.48
Consensus MFE -24.03
Energy contribution -25.32
Covariance contribution 1.28
Combinations/Pair 1.39
Mean z-score -2.60
Structure conservation index 0.45
SVM decision value 1.55
SVM RNA-class probability 0.963541
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7107650 108 - 20766785
CGCUGCUGCCGGAUUGGGUUUAUUGCCACAAGCUGGAGGCGC---------CUCUGCCAAUGACCGUUAUU---CCAUGGCAGCAGCAGCGGCGGCUGCGGCGGGAGCCCAUCACCACCA
.(((((((((((.((((((.....))).))).)))(((....---------)))(((((.((.........---.)))))))))))))))((.((.((.(((....)))))...)).)). ( -44.80)
>DroVir_CAF1 174016 114 - 1
CGCGGCCGCCGGCUUGGGCCUAUUACCAAAUGCUGCCGGCGCAGC------GGCUGCCAAUGAUCGUUACUCAUCAAUGGCCGCAGCAGCUGCGGCAGCUGCUGGCGCCCACCAUCACCA
...((.(((((((((((........))))..((((((...(((((------.((.((((.((((........)))).)))).))....))))))))))).))))))).)).......... ( -53.40)
>DroPse_CAF1 143120 108 - 1
CGCCGCCGCUGGCCUGGGCCUCCUUCCGCAAACGGGUGGCGG---------CUCUGCCAAUGACCGCUACU---CGAUGGCCGCUGCAGCAGCGGCGGCGGCCGGCGCCCAUCAUCAUCA
((((((((((((((.(((......))).....((((((((((---------.((.......))))))))))---))..))))(((((....)))))))))).)))))............. ( -55.30)
>DroGri_CAF1 182606 120 - 1
CGCCGCUGCCGGCUUGGGUCUGCUGCCAAAUGCUGCGGGCGCAGCAGCUGCCGCUGCCAAUGACCGUUACUCAUCGAUGGCAGCGGCAGCGGCAGCAGCGGCCGGCGCCCAUCAUCAUCA
....((.(((((((...(.((((((((...((((((....))))))(((((((((((((((((.......))))...)))))))))))))))))))))))))))))))............ ( -73.60)
>DroWil_CAF1 217179 108 - 1
CGCUGCCGCCGGCUUAGGUCUUUUGCCAAAUACAGCUGGAGC---------CGCUGCCAACGAUCGUUAUU---CAAUGGCCGCGGCAGCAGCCGCAGCGGCAGGAGCCCAUCAUCAUCA
..((((((((((((..((.(((..((........))..))))---------)((((((..((..((((...---.))))..)).)))))))))))..)))))))................ ( -45.10)
>DroAna_CAF1 140117 108 - 1
CGCAGCCGCCGGCUUGGGCCUGCUCCCAAAUGCAGCUGGCGC---------AGCUGCCAAUGAUCGGUAUU---CCAUGGCCGCAGCAGCAGCGGCGGCAGCGGGAGCGCAUCAUCACCA
.(((((((((((((((((......)))).....)))))))).---------.)))))...((((..(..((---((...(((((.((....)).)))))....))))..)...))))... ( -48.70)
>consensus
CGCCGCCGCCGGCUUGGGCCUACUGCCAAAUGCUGCUGGCGC_________CGCUGCCAAUGACCGUUACU___CAAUGGCCGCAGCAGCAGCGGCAGCGGCCGGAGCCCAUCAUCACCA
.((((((((((((((((........)))).....)))))))...........(((((...((.(((((.......)))))...))...)))))....))))).................. (-24.03 = -25.32 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:30 2006