Locus 2443

Sequence ID 2R_DroMel_CAF1
Location 8,800,205 – 8,800,295
Length 90
Max. P 0.938578
window4039 window4040

overview

Window 9

Location 8,800,205 – 8,800,295
Length 90
Sequences 3
Columns 91
Reading direction forward
Mean pairwise identity 69.32
Mean single sequence MFE -18.67
Consensus MFE -10.71
Energy contribution -11.27
Covariance contribution 0.56
Combinations/Pair 1.07
Mean z-score -1.72
Structure conservation index 0.57
SVM decision value 1.27
SVM RNA-class probability 0.938578
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8800205 90 + 20766785
UUUGUGGCCGGCCCUAAUUUUCGGCAUUUUCCUUCAGC-CAGGAUCUCAGCUUCAUCCUGUGCCCUGCCAUCCUGCCAUCCAAUCACUUGC
...((((((((.........)))))...........(.-((((((..(((...(((...)))..)))..)))))).).......))).... ( -18.20)
>DroSim_CAF1 45863 75 + 1
UUUGUGGCUGGCCCUUAUUU-CGG----------CAGC-CAGGACCUCAUCUUCUUGCUGUUCCCUGCCACC----CACCCAAUCACUUGC
...((((.((((........-.((----------((((-.((((.......)))).))))))....)))).)----)))............ ( -18.82)
>DroEre_CAF1 47867 80 + 1
UUUGUGGCCGGCCCAAAUGCUCGGC----UCCUUCAGCCCAGGACCUCAUCUUCAUCCUGGCCCCUGCCAAU-------UUUUGCUUUUGC
....((((.((((.........(((----(.....)))).((((...........))))))))...))))..-------............ ( -19.00)
>consensus
UUUGUGGCCGGCCCUAAUUUUCGGC____UCCUUCAGC_CAGGACCUCAUCUUCAUCCUGUCCCCUGCCAAC____CA_CCAAUCACUUGC
...(((((.((.((........))...............(((((...........)))))...)).))))).................... (-10.71 = -11.27 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 8,800,205 – 8,800,295
Length 90
Sequences 3
Columns 91
Reading direction reverse
Mean pairwise identity 69.32
Mean single sequence MFE -24.47
Consensus MFE -12.64
Energy contribution -13.20
Covariance contribution 0.56
Combinations/Pair 1.07
Mean z-score -1.98
Structure conservation index 0.52
SVM decision value 1.03
SVM RNA-class probability 0.903260
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8800205 90 - 20766785
GCAAGUGAUUGGAUGGCAGGAUGGCAGGGCACAGGAUGAAGCUGAGAUCCUG-GCUGAAGGAAAAUGCCGAAAAUUAGGGCCGGCCACAAA
.(((....)))..((((....((((..(((.((((((.........))))))-)))...........((........)))))))))).... ( -24.00)
>DroSim_CAF1 45863 75 - 1
GCAAGUGAUUGGGUG----GGUGGCAGGGAACAGCAAGAAGAUGAGGUCCUG-GCUG----------CCG-AAAUAAGGGCCAGCCACAAA
.(((....))).(((----(.((((......((((....((........)).-))))----------((.-......)))))).))))... ( -23.50)
>DroEre_CAF1 47867 80 - 1
GCAAAAGCAAAA-------AUUGGCAGGGGCCAGGAUGAAGAUGAGGUCCUGGGCUGAAGGA----GCCGAGCAUUUGGGCCGGCCACAAA
((....))....-------..((((...((((..((((..(((...)))((.((((.....)----))).))))))..)))).)))).... ( -25.90)
>consensus
GCAAGUGAUUGG_UG____GAUGGCAGGGAACAGGAUGAAGAUGAGGUCCUG_GCUGAAGGA____GCCGAAAAUUAGGGCCGGCCACAAA
.....................((((.((...((((((.........))))))...............((........)).)).)))).... (-12.64 = -13.20 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:14 2006