Locus 2749

Sequence ID 3R_DroMel_CAF1
Location 7,361,586 – 7,361,695
Length 109
Max. P 0.998992
window4467 window4468

overview

Window 7

Location 7,361,586 – 7,361,695
Length 109
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 83.92
Mean single sequence MFE -24.62
Consensus MFE -21.60
Energy contribution -21.60
Covariance contribution -0.00
Combinations/Pair 1.05
Mean z-score -3.68
Structure conservation index 0.88
SVM decision value 3.32
SVM RNA-class probability 0.998992
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7361586 109 + 27905053
CCACACGGGGCAGGCCAUUAAUUAGCACACCGCCCACUUAAUGGCCAGCGAACAUCACUUCCCCCAUCUCCCAUCGGCCCAUCUCCACCGGCUUCGAUACUCACCCACA
......(((((.(((((((((...((.....))....))))))))).)).......................(((((((..........)))..)))).....)))... ( -26.70)
>DroSim_CAF1 43015 101 + 1
CCACACGGGGCAGGCCAUUAAUUAGCACACCGCCCACUUAAUGGCCAGCUAACAUCUCUUCCCC------CCAUCAGCCCAU--CCACCGGUUUCGAUACUCACCCACA
......(((((.(((((((((...((.....))....))))))))).))...............------..(((((((...--.....))))..))).....)))... ( -23.90)
>DroEre_CAF1 41202 92 + 1
CCACACGGGGCAGGCCAUUAAUUAGCACUCCGCCCACUUAAUGGCCAGCUAACAUCUC--------------AUC-GCCCAA--CUCCCGGUUUCAAUACUCACCCACA
......(((((.(((((((((...((.....))....))))))))).)).........--------------...-(((...--.....)))...........)))... ( -22.50)
>DroYak_CAF1 42475 99 + 1
CCACACGGGGCAGGCCAUUAAUUAGCACUCCGCCCACUUAAUGGCCAGCUAACAUCUCAGCU-C------CCAUC-GCCCAA--CUCUCUGCCACGAUACUCACCCACA
.......((((.(((((((((...((.....))....)))))))))((((........))))-.------.....-))))..--......................... ( -25.40)
>consensus
CCACACGGGGCAGGCCAUUAAUUAGCACACCGCCCACUUAAUGGCCAGCUAACAUCUCUUCC_C______CCAUC_GCCCAA__CCACCGGCUUCGAUACUCACCCACA
......(((((.(((((((((...((.....))....))))))))).))...........................(((..........)))...........)))... (-21.60 = -21.60 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 7,361,586 – 7,361,695
Length 109
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 83.92
Mean single sequence MFE -32.95
Consensus MFE -25.66
Energy contribution -26.22
Covariance contribution 0.56
Combinations/Pair 1.15
Mean z-score -1.43
Structure conservation index 0.78
SVM decision value -0.04
SVM RNA-class probability 0.513072
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7361586 109 - 27905053
UGUGGGUGAGUAUCGAAGCCGGUGGAGAUGGGCCGAUGGGAGAUGGGGGAAGUGAUGUUCGCUGGCCAUUAAGUGGGCGGUGUGCUAAUUAAUGGCCUGCCCCGUGUGG
..........(((((..(((.((....)).))))))))..(.((((((..((((.....))))(((((((((...(((.....)))..)))))))))..)))))).).. ( -39.40)
>DroSim_CAF1 43015 101 - 1
UGUGGGUGAGUAUCGAAACCGGUGG--AUGGGCUGAUGG------GGGGAAGAGAUGUUAGCUGGCCAUUAAGUGGGCGGUGUGCUAAUUAAUGGCCUGCCCCGUGUGG
.(.((((...(((((....))))).--...((((((((.------..........))))))))(((((((((...(((.....)))..))))))))).)))))...... ( -31.30)
>DroEre_CAF1 41202 92 - 1
UGUGGGUGAGUAUUGAAACCGGGAG--UUGGGC-GAU--------------GAGAUGUUAGCUGGCCAUUAAGUGGGCGGAGUGCUAAUUAAUGGCCUGCCCCGUGUGG
...(((....(((((...(((....--.))).)-)))--------------)........((.(((((((((...(((.....)))..))))))))).)))))...... ( -28.30)
>DroYak_CAF1 42475 99 - 1
UGUGGGUGAGUAUCGUGGCAGAGAG--UUGGGC-GAUGG------G-AGCUGAGAUGUUAGCUGGCCAUUAAGUGGGCGGAGUGCUAAUUAAUGGCCUGCCCCGUGUGG
.(.((((...(((((((((.....)--))..))-)))).------.-((((((....))))))(((((((((...(((.....)))..))))))))).)))))...... ( -32.80)
>consensus
UGUGGGUGAGUAUCGAAACCGGGAG__AUGGGC_GAUGG______G_GGAAGAGAUGUUAGCUGGCCAUUAAGUGGGCGGAGUGCUAAUUAAUGGCCUGCCCCGUGUGG
...(((....(((((..(((.((....)).))))))))......................((.(((((((((...(((.....)))..))))))))).)))))...... (-25.66 = -26.22 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:57 2006