Good morning,

I've just discovered UGENE and found in the documentation that a frequency matrix can be created from a file:
"To create a position weight or frequency matrix from an alignment or a file with several sequences, press the Build new matrix button in the Weight matrix search dialog, or select the Tools ‣ Weight matrix ‣ Build weight matrix program main menu item"

Below I pasted a FASTA representation, could the frequency matrix be created for it in UGENE?
Thanks so much for any hint.
Karen

>1001
CCCACCACCCCCACCACACCACACCACCCCAAA

>1003
CTCCTTCACTTTCAATTAACAAACAACCAAAATCCATAAAAACCCAAAAACTATACCTAATAATATTCTCCCT

>1005
CCCCTCTTCCCTTCCT

>1012
AACCAAACCAAACAAAATCAAACTAATAATAAAAATCAAAACATAACAAAAAACCCTCCCCAAACCAAATCATAATCCAA
AACCAACCTAAATCCTATTCCATCCACACAAACCCAAACTCAAA

>1017
CACAACACAATCAAACCAAAACAACCATCCCTCTCCATAACCAACAAACAACCAACCACCAACACAACCAAAACAAAACC
ACAAAAAACCAAACACAACCAAAACCACAACAACAAATCCT

>1022
CACCCACAACCCCACAACACAAACAACACACCCCACAA

>1024
AAAAAAAAACCCCAAAAACAAAAAACACCACCATCACTAATCCATCTCATACCAACCC

>1026
AAAAAAAAAACACAATCCTCCAACACAACCCACAACACAACAAAAAAACAACAAATCAATAAAAAATTTCTTCCCAAAAA
TTTCTAAAATCTATTTTCTTTTCTTACAAA

>1027
ATAATAACACAAAAAAAAAAAAAAACCACAAACAAAAAAACTTATTCATAATATTCCCCAAA

>1029
CCCCATCTCCCCCTCCCCCATCCCTCTCACTCCCCCCCTTTCCCTTTAAAAA

>1030
AAAAAATCCCCTTCCCCTTCCCCTTTCCTAATTATTCCCCCCCCCCCTTTTTCCCTCTTCTACACCAAATATCCCTTAAA
AATCCCCTCCAAACCTTTAACCCACCACAATTCTTTATTAT

>1033
CACACACCAAAAAATCACTATACC

>1035
AAAAAAACAAACCAAAAACAC

>1037
CTCCTACACACCCCTCCTT


>1044
CCCCACAACCTCCAATCACAACCCCCC

>1052
ATCCCACATCTACTTCATACACATACAAA

>1053
CCAACTCCCTCCCTCTCCTACCCCC

>1055
AAAAAAAAAAACCTAAACCAACAAAACCAAAAACTACAACACTACCAATTTCCTTTAAATTAAACCTTACC

>1057
CACACAACAAAACACTCCAAAACTCCACCTAACACCCAATCCACACACCCAAACACAAACAAAAATAAAAAAAAAACACC
AAAAAACCACAACAATCCCCAAA

>1067
CCCCAAACCCAAAAAAACCCCAAAACCCCCCCCCCCCCCTTCCTCTTATTATCCACTACCCCCAAAAATTAAATTAAAAT
TAATTAATATATAATCTATATTTCTTTTCCCACATTCTTTTCCCCACAAA

>1068
CACCACAACCACCACCACCCCCCACTTCATATATCAATATACAACCAACATCCTCCCTCAAACTAATCCAAAACCTCCCC
CCAAAAA

>1073
CCAAAAAACAAATCAAAAATCCAATAATTCCACTTTTTAAATTACCTTCTCTATATATAACTCAAACAACA

>1088
CCCACAATCACCTCCTCCTTCTCCCTAATATACACCCCCACACCACACATCCAATCAATCATCTTTTTTTCCAAAATTTT
TCCCCCAAACTAAAAACATATCCCCATACCCCCCCCCCCCCCTTATTATTTTAA

>1114
ACTCACACAAAATTCCCAATCTAAAATCACATTCACTATTCACTTTCTAATATTTCCTTAAAATACATAAAACCAAAAAT
CCTATTTTCACTACACAC

>1122
CAAAAACCCCAAAAACCTTTCCTTTCTTCCCCTTTAAAATAAACTCCATCAACCCTAAATAAAAATCCTCCCAAACAAAA
AA

>1145
TTTCCTCTTTTTTTTTTTTTTCTCCTTTTTTTTTATTATTTATTATATATCTTAACATTTAATAATTACTTAATTTTATA
TTCTCTCCTTTTTTTTTTCTCTTTTTTTTAAATTTCCTAATTTTAATTATTTCACAATTCTAATTTCCACATTTATAG

>1146
CCCTACTCATACTCTCCACTACCCAACACTCCTTCAATTAAATTTAATTCATTACCTTATACTACCATTAACACCCAAAA
AATTTCTCACTTTTATTTTTAATTTTTCTATCAAATTAAATCCATCCATTA

>1157
CTCTAATTTTCATCCATTTCCCACCTTTACAACAAAACCTAAAATAAAATTTCCCAATTCAACTTCCAAACAATCTCTTA
ATTATCTTCCAATAATACTCATTAAAAAAATTCTCCAACCAACC

>1161
ACACTCATATCCAATTTATATCTCCAAAAAACTCATATAATACCCTACATTACTTATTCCCAACCACCTACAACAAAATC
TCATCATTTAAA

>1164
TCTCCTATCTTCTTATAA

>1187
AAAACCACAACAAAAAAACCAAAAAACCCAAAAACTCCCCTTCTCCTTCTCTCAATAAATCATAATTCTCCTTTTCTCCT
TTCTTCTTTTTTTTTATACCATAAATATACCTAATAA

>1196
CTCCACACACTCTACAAATCATCAACTATCCCCCAACACTCTCCCTTCCCCTTCCCCCCCCTAAACTAATCCCAAAAAAA
AACCCCACCACAACCCCAAAAAAAAA

>1206
CTTCAAACCCCACAAACCTACATATACCTACAAAATTCACCAACAA