I have some protein sequences and I want to build a position-specific scoring matrix (PSSM) for them and then upload this PSSM to NCBI PSI-BLAST. I used CHAPS program for this pupose but uploading the output PSSM gave me an error in NCBI PSI-BLAST. Do you know any tool or webserver for getting PSSMs for a group of protein sequences which then can work in NCBI PSI-BLAST?This is a part of my PSSM file: PssmWithParameters ::= {pssm {    isProtein TRUE ,    numRows 28 ,    numColumns 131 ,    byRow FALSE ,    query    seq {        id {            other {                accession WP_000208753 } } ,        inst {            repr raw ,            mol aa ,            length 131 ,            seq-data            ncbieaa MTTKRKPYVRPMTSTWWKKLPFYRFYMLREGTAVPAVWFSIELIFGLFALKNGPEAWAGFIDFLQNPVIVIINLITLAAALLHTKTWFELAPKAANIIVKDEKMGPEPIIKSLWAVTVVATIVILFVALYW } } ,    intermediateData {        freqRatios {            { 0, 10, 0 } ,            { 564418841, 10, -10 } ,            { 0, 10, 0 } ,            { 11768571, 10, -9 } ,            { 185838265, 10, -10 } ,            { 31496547, 10, -9 } ,            { 3872857, 10, -8 } ,            { 291750464, 10, -10 } ,            { 128450763, 10, -10 } ,            { 759856221, 10, -10 } ,            { 359173937, 10, -10 } ,            { 179865517, 10, -9 } ,            { 14537895, 10, -8 } ,            { 212921456, 10, -10 } ,            { 220554141, 10, -10 } ,            { 368516324, 10, -10 } ,            { 319343525, 10, -10 } ,            { 426173953, 10, -10 } ,            { 463659523, 10, -10 } ,            { 817322186, 10, -10 } ,            { 811693964, 10, -11 } ,            { 0, 10, 0 } ,            { 227810064, 10, -10 } ,            { 0, 10, 0 } ,            { 0, 10, 0 } ,            { 0, 10, 0 } ,            { 0, 10, 0 } ,            { 0, 10, 0 } ,            { 0, 10, 0 } ,            { 768325726, 10, -10 } ,            { 0, 10, 0 } ,            { 1425562, 10, -8 } ,            { 372685285, 10, -10 } ,            { 466727421, 10, -10 } ,            { 185741084, 10, -10 } ,            { 427328646, 10, -10 } ,            { 122594965, 10, -10 } , 
A tool or webserver for building PSSM matrix
blast;phylogeny