ribl "Fis" * Ri 2.79 * * Ri(b,l) table is from: ** rseq 5.41 rsequence calculated from encoded sequences from: ** encode 1.42; encoding of sequences in ** * 2012/07/05 17:14:40, 2012/07/05 16:20:04, inst * * BOOK/INST sequences are from: * 2012/07/05 17:14:40, 2012/07/05 16:20:04, inst * title "inst"; * * PARAMETERS FOR Ri: * -10 10 from-to * 1 column of value file * -2147483647.000000 2147483647.000000 lowest to highest Ri selected * -2147483647.000000 2147483647.000000 lowest to highest Value selected * not printing sequences to sequ * printing sequences to rixyin * -: whole line printed when partial site * using Staden's Method: when f(b,l) = 0, replace with f(b,l) = 1/(n+t), t = 2.0 * * i alignmenttype first, book, instructions * Ri(a,l) Ri(c,l) Ri(g,l) Ri(t,l) l a c g t -10 10 frombase, tobase 0.061387 -0.608464 -0.980433 0.830957 -10 105 66 51 179 1.061387 -0.980433 -0.871499 -0.243467 -9 210 51 55 85 1.061387 -0.052946 -1.443405 -0.819968 -8 210 97 37 57 -6.660036 -2.404931 -3.193427 1.882417 -7 0 19 11 371 -0.052946 -0.503111 0.254032 0.167321 -6 97 71 120 113 -0.009002 0.102029 -0.193427 0.061387 -5 100 108 88 105 0.369509 -0.129296 -0.083003 -0.260541 -4 130 92 95 84 -0.038149 0.180032 -0.226594 0.033642 -3 98 114 86 103 0.033642 0.047581 -0.052946 -0.052946 -2 103 104 97 97 -0.145064 0.347142 -0.260541 -0.038149 -1 91 128 84 98 0.141557 0.402424 -0.330930 -0.386072 0 111 133 80 77 0.180032 -0.161005 -0.226594 0.141557 1 114 90 86 111 0.180032 -0.295306 -0.745968 0.527051 2 114 82 60 145 -0.038149 0.019567 -0.586769 0.413231 3 98 102 67 134 0.088609 -0.404931 -0.260541 0.413231 4 107 76 84 134 0.141557 -0.277819 -0.313008 0.324421 5 111 83 81 126 0.369509 -0.523575 -0.349078 0.277879 6 130 70 79 122 0.254032 -0.177125 -0.424040 0.217506 7 120 89 75 117 0.445174 -0.367456 -0.349078 0.088609 8 137 78 79 107 0.229785 -0.113700 -0.145064 -0.023502 9 118 93 91 99 0.402424 -0.330930 -0.313008 0.088609 10 133 80 81 107 * 2.628092 bits = mean (Rsequence of selected region) 2.176088 bits = standard deviation * 10.097787 bits = Ri of consensus sequence from -10 to 10 -16.015874 bits = Ri of anticonsensus sequence from -10 to 10 * -3.901931 bits = average Ri for random sequence from -10 to 10 * 401 n, number of sequences used to create the matrix * asymmetric symmetry of the matrix * -5000.000000 Ri bound: lower bound on Ri 100.000000 Z bound: lower bound on Z 1.000000 P bound: upper probability * h extreme: char; h or l, the high or low extreme to be defined -11.5 wavelocation: real; the location in bases of the extreme 2.0 wavebit: real; the location in bits of the extreme 0.5 waveamplitude: real; the amplitude of the wave in bits 10.6 wavelength: real; the wave length of the wave in bases -0.2 -0.2 0.0 dashon, dashoff, dashoffset (in bases) 0.0 thickness: real; the thickness of the cosine wave. <=0 means default .