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/home/cluster1/data/bu01/1121861/jlex/rdloci/alignments/founder_vregions_dna.meg
#Mega Title: founder_vregions_dna.aln #J166_locus1_Red_KD -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- ------------GAACAAGAAAGACAGAAGGCA-AACAATACGCAAA--- AAGATTTGGTTAAAGAACAGAAAGAT----------TTGGTTAAAGAACA GAAAGATTTG--------------------GTTAAAGAACAGAAAGATTT CATTAAATACGCA------------------------------------- ------ #J166_locus2_Red_KD -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- ------------GAACAAGAAAGACAGAAGGCA-AACAATACGCAAA--- AAGATTTGGTTAAAGAACAGAAAGAT----------TTGGTTAAAGAACA GAAAGATTTG--------------------GTTAAAGAACAGAAAGATTT CATTAAATACGCA------------------------------------- ------ #26695_locus1_Red_SN -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- ----GAACAAGAAAAACAAAAGACGAGCAATATAGAGACTAACAATCAAA TAAAAGTAGAACAAGAAAAACAAAAGACAAGCAATATAGAGACTAATAAT CAAATAAAAGTAGAACAAGAACAACAAAAGACA-AGCAATACACAGA--- AAGATTTGGTTAAAGAACAGAAAGAT----------TTGGTTAAAGAACA GAAAGATTTG--------------------GTTAAAGAACAGAAAGATTT GGTTAAAGA-ACAGAAAGATTTGGTTAAAACACAGAAAGATTTCATTAAA TATGTA #J258_locus1_Red_SN -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- GAACAAGAAAAACAAAAGACAAGCAATATAGAGACTAACAATCAAATAAA AGTAGAACAAGAAAAACAAAAGACAAGCAATATAGAGACTAATAACCAAA TAAAAGTAGAACAAGAAAAACAAAAGACAAGCAATGTAGAGACTAATAAC CAAATAAAAGTAGAACAAGAACAACAAAAGACA-AGCAATACGCAAA--- AAGATTTGGTTAAAGAACAGAAAGAT----------TTGGTTAAAGAACA GAAAGATTTG--------------------GTTAAAGAACAGAAAGATTT GGTTAAAGA-ACAGAAAGATTTCATTAAATACGCA--------------- ------ #J254_locus2_Green_SN -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- ----------------GCTGAAACTCAAAAGGAAGCTGAAAATGCTAGGG ATAGAGCGAACAAGAGTGGGATAGAACTCGCTAATAGTCAAATAAAAGCA GAACAAGAACAACAGAAGACAGAACAAGAACAA----------------- --CAGAAGAC--AGAACAAGAACAACAGAAGACAGAACA-AGAAAAACAA AAGACA-----------GAACAAGAAAAACAAAAGACAGA-ACAGGAAA- ---------AACAAAAGACAGAACAGGAA--A------------------ -AACAAAAGACAGAACAGGAAAAACAAAAGACA-AGCAATATAGAGACTA ATAATCAAATAAAAGTAGAACAAGAACAACAAAAGACAGAACAAGAAAAA CAAAAGACA---------------------AACAATACACAAAAAGATCT CATTAACAAAGCA------------------------------------- ------ #J99_locus2_Green_SN -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -----------------------------GCTCAAGCTCAAAAGGAAGCT GAA-AACGCTAGGGATAGAGCGAACAAGAGTGG----------------- --GATAGAAC-TGGAACAAGAAGAGCAAAAGACAGAACA-AGAAAAACAA AAGACA-----------GAACAAGAAAAACAAAAGACAGA-ACAAGAAA- ---------AACAAAAGACAGAACAAGAA--A------------------ -AACAAAAGACAGAACAAGAAAAACAAAAGACA-AGCAATATAGAGACTA ACAATCAAATAAAAGTAGAACAAGAACAACAAAAGACAGAACAGGAAAAA CAAAAGACA---------------------AACAATACGCAAAAAGATTT GGTTAACAAAGCA------------------------------------- ------ #J230_locus2_Green_SN -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -----------------------------GCTGAAACTCAAAAGGAAGCT GAG-AATGCTAGGGATAGAGCAAACAAGAGTGG----------------- --GATAGAAT-TGGAACAAGAAAAACAAAAGACAAGCAATATAGAGACTA ATAACC-----------AAATAAAAGTAGAACAAGAAAAACAAAAGACA- ---------AGCAATATAGAGACTAATAACCA------------------ -AATAAAAG-TAGAACAAGAAAAACAAAAGACA-AGCAATATAGAGACTA ATAACCAAATAAAAGTAGAACAAGAACAACAAAAGACAGAACAAGAAAAA CAAAAGACA---------------------AACAATACGCAAAAAGATCT CATTAAAAAAGCA------------------------------------- ------ #J258_locus2_Green_SN -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -----------------------------GCTGAAACTCAAAAGGAAGCT GAA-AATGCTAGGGATAGAGCAAACAAGAGTGG----------------- --GATAGAAT-TGGAACAAGAAAAACAAAAAACAGAACA-AGAACAACAA AAAACA---------------------------------GAACAAGAAC- ---------AACAAAAGACAGAACAAGAA--A------------------ -AACAAAAGACAGAACAAGAAAAACAAAAGACA-AGCAATATAGAGACTA ATAACAAAATAAGAGTAGAACAAGAACAACAAAAGACAGAACAAGAAAAA CAAAAGACA---------------------ATTAATACACAGAAAGATTT CATTAAATATGTA------------------------------------- ------ #M-HP1_Locus2_Green_SN -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -----------------------------GCTGAAACTCAAAAGGAAGCT GAA-AATGCTAGGGATAGAGCAAACAAGAGTGG----------------- --GATAGAAC-TAGAACAAGAAAAACAAAAGACAGAACA-AGAAAAACAA AAGACAAGCAATATAGAGACTAATAATCAAATAAAAGTAGAACAAGAAC- ---------AACAAAAGACAGAACAAGAA--A------------------ -AACAAAAGACAGAACAAGAAAAACAAAAGACA-AGCAATATAGAGACTA ATAATCAAATAAAAGTAGAACAAGAACAACAAAAGACAGAACAAGAAAAA CAAAAGACAGAACAAGAAAAACAAAAGACCATTAAAACACAAAAAGATTT CATTAAAGACCT-------------------------------------- ------ #26695_locus2_Red_SN -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------GAACAAGAAAAACAAAAGACGAGCAATATAGAGACTA ACAATC-----------AAATAAAAGTAGAACAAGAAAAACAAAAGACA- ---------AGCAATATAGAGACTAATAATCA------------------ -AATAAAAG-TAGAACAAGAACAACAGAAAACAGAACAAGAAAGACA--- ----------GAAAACAGAACAAGAAAGACAGAAGACAGAACAAGAAAAA CAAAAGACC---------------------ATTAAAACACAGAAAGATTT CATTAAATATGTA------------------------------------- ------ #J178_locus2_Red_EQ -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- ------------GAACAAGAACACCAGAAGACAGAACAAGAAAGACA--- ----------AAAGACAGAACAAGAAAGACAAAAGACAGAACAAGAAAAA CAAAAGACA---------------------ATTAATACACAGAAAGATTT CATTAAATACGTA------------------------------------- ------ #J282_locus2_Red_EQ -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -----------------GAACAAGAACAACAAAAGACAGAACAAGAAAAA CAAAAGACA---------------------ATTAATACACAGAAAGATTT CATTAAATACGCA------------------------------------- ------ #26695_locus1_Green_SN -------------------------------------------------- -------------------------------------------------G CTGAAACTCAAAAGGAAGCTGAAAACGCTAGGGATAGAGCAAACAAGAGT GGGATAGAATTGGAACAAGAACAACAAAAGACAGAACAAGAAAAACAAAA GACAGAACAAGAAAAACAAAAGACAGAACAAGAAAAACAAAAGACAAGCA ATATAGAGACTAACAATCAAATAAAAGTAGAACAAAAACAACAAAAGACA GAACAAGAAAAACAAAAGACAGAACAAGAAAAACAAAAGACAGAACAAGA AAAACAAAAGACAGAACAAGAAAAACAAAAGACAAGCAATATAGAGACTA ACAATC-----------AAATAAAAGTAGAACAAAAACAACAAAAGACAG AACAAGAAAAACAAAAGACAGAACAAGAAAAACAAAAGACAGAACAAGAA AAACAAAAGACAGAACAGGAAAAACAAAAGACA-AGCAATATAGAGACTA ACAATCAAATAAAAGTAGAACAAGAACAACAGAAGACAGAACAAGAAAAA CAAAAGACA---------------------AACAATACGCAAAAAGATTT GGTTAAATACGCA------------------------------------- ------ #26695_locus1_Red_NK -------------------------------------------------- -------------------------------------------------G CTGAAACTCAAAAGGAAGCTGAAAACGCTAGGGATAGAGCAAACAAGAGT GGGATAGAATTGGAACAAGAACAACAAAAGACAGAACAAGAAAAACAAAA GACAGAACAAGAAAAACAAAAGACAGAACAAGAAAAACAAAAGACAAGCA ATATAGAGACTAACAATCAAATAAAAGTAGAACAAAAACAACAAAAGACA GAACAAGAAAAACAAAAGACAGAACAAGAAAAACAAAAGACAGAACAAGA AAAACAAAAGACAGAACAAGAAAAACAAAAGACAAGCAATATAGAGACTA ACAATC-----------AAATAAAAGTAGAACAAAAACAACAAAAGACAG AACAAGAAAAACAAAAGACAGAACAAGAAAAACAAAAGACAGAACAAGAA AAACAAAAGACAGAACAGGAAAAACAAAAGACA-AGCAATATAGAGACTA ACAATCAAATAAAAGTAGAACAAGAACAACAGAAGACAGAACAAGAAAAA CAAAAGACA---------------------AACAATACGCAAAAAGATTT GGTTAAATACGCA------------------------------------- ------ #J166_locus1_Green_SN -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------GAACAAGAACAACAAAAGACAAGCA ATATAGAGACTAATAACCAAATAAAAGTAGAACAGGAAAAACAAAAGACA ----------AGCAATATAGAGACTAATAACCA----------------- --AATAAAAG-TAGAACAGGAAAAACAAAAGACAAGCAATATAGAGACTA ATAACC-----------AAATAAAAGTAGAACAGGAAAAACAAAAGACA- ---------AGCAATATAGAGACTAACAATCA------------------ -AATAAAAG-TAGAACAAGAAAAGCAAAAGACA-AGCAATATAGAGACTA ACAATCAAATAAAAGTAGAACAAGAA---------------------AAG CAAAAGACA---------------------AACAATACACAAAAAGATTT GGTTAACAAAGCA------------------------------------- ------ #J170_locus2_Green_SN GCTGAAACTCAAAAGGAAGCTGAAAATGCTAGGGATAGAGCAAACAAGAG TGGGATAGAACTGGAACAAGAACAACAAAAGACAAGCAACATAGAGACTA ACAATCAAATAAAAGTAGAACAAGAAAAACAAAAGACAAGCAATATAGAG ACTAACAATCAAATAAAAGTAGAACAAGAAAAACAGAAGACAAGCAATAT AGAGACTAATAACCAAATAAAAGTAGAACAAGAAAAACAAAAGACAAGCA ATATAGAGACTAATAATCAAATAAAAGTAGAACAAGAAAAACAAAAGACA ----------AGCAATATAGAGACTAACAATCA----------------- --AATAAAAG-TAGAACAAGAAAAACAGAAGACAAGCAATATAGAGACTA ATAACC-----------AAATAAAAGTAGAACAAGAAAAACAAAAGACA- ---------AGCAATATAGAGACTAATAATCA------------------ -AATAAAAG-TAGAACAAGAAAAACAAAAGACA-AGCAATATAGAGACTA ACAATCAAATAAAAGTAGAACAAGAACAACAAAAGACAGAACAAGAAAAA CAAAAGACA---------------------AACAATACGCAAAAAGATCT CATTAAAAAAGCA------------------------------------- ------ #J170_locus1_Red_NK -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -----------------------------------------GAACAAGAA AAACA-AAAGACAGAACAAGAACAACAGAAAACAGAACA-AGAAAGACAA AAAGCAAATAAGA-GTGGGATAGAGTTAGAACAAGAAAGAC--------- ------------GGAAAACAAATAAGAGTGAGATAGAACTCGCTAATAGT CAAATAAAAGTAGAACAAGAAA---------------------AACA--- AAAAGCAAATAAGAGTGAGATAGAGT----------TAGAACAGCAAAAA CAAAAGACA---------------------ATTAATACACAAAGAGATTT GATTAA-AGAACAGAAAGATTTCATTAAAGAAACA--------------- ------ #J230_locus1_Red_NK -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -----------------------------------------GAACAAGAA AAACA-AAAGACAGAACAAGAACAACAGAAAACAGAACA-AGAAAGACAA AAAGCAAATAAGA-GTGGGATAGAGTTAGAACAAGAAAGACAGAAAACAG AACAAGAAAGACGGAAAACAAATAAGAGTGAGATAGAACTCGCTAATAGT CAAATAAAAGTAGAACAAGAAA---------------------AACA--- AAAAGCAAATAAGAGTGAGATAGAGT----------TAGAACAGCAAAAA CAAAAGACA---------------------ATTAATACACAAAGAGATTT GATTAA-AGAACAGAAAGATTTCATTAAAGAAACA--------------- ------ #J282_locus1_Red_NK -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -----------------------------------------GAACAAGAA AAACA-AAAGACAGAACAAGAACAACAGAAAACAGAACA-AGAAAGACAA AAAGCAAATAAGA-GTGGGATAGAGTTAGAACAAGAAAGAC--------- ------------AGAAAACAAACAAGAGTGGGATAGAACTCGCTAATAGT CAAATAAAAGCAGAACAAGAAAGACAAAAGACAGAACAAGAAAAACA--- AAAAGCAAATAAGAGTGAAATAGAGT----------TAGAACAGCAAAAA CAAAAGACA---------------------ATTAATACACAAAGAGATTT AATTAA-AGAACAGAAAGATTTTATTAAAGAAACA--------------- ------ #J178_locus1_Red_NK -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- ---------------------GAACAAGAAAAACAGAAGGCAAATAAGAG TGGGATAGAGTTAGAACAAGAAAGACAGAAAACAGAACA-AGAAAGACAG AAAACAAATAAGA-GTGAAATAGAGTTAGAACAAGAAAGAC--------- ------------GGAAAACAAACAAGAGTGAGATAGAACTCGCTAATAGT CAAATAAAAGTAGAACAAGAAA---------------------AACA--- AAAAGCAAATAAGAGTGAGATAGAGT----------TAGAACAGCAAAAA CAAAAGACA---------------------ATTAATACACAAAGAGATTT GATTAA-AGAACAGAAAGATTTCATTAAAGAAACA--------------- ------ #M-HP1_Locus1_Red_NK -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- ---------------------GAACAAGAAAAACAGAAGGCAAATAAGAG TGGGATAGAGTTAGAACAAGAAAAACAGAAGACAGAACA-AGAAAAACAA AAAGCAAATAAGA-GTGAGATAGAGTTAGAACAAGAAAGAC--------- ------------AGAAAACAAACAAGAGTGGGATAGAACTCGCTAATAGT CAAATAAAAGCAGAACAAGAAAGACAGAAGACAGAACAAGAAAAACA--- AAAAGCAAATAAGAGTGAGATAGAGT----------TAGAACAGCAAAAA CAAAAGACA---------------------ATTAATACACAAAGAGATTT GATTAA-AGAACAGAAAGATTTGATTAAAGAACAGAAAGATTTCATTAAA GAAACA #J99_locus1_Red_NK -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- ---------------------GAACAAGAAAAAAAGGAAGCAAATAAGAG TGGGATAAAGTTAGAACAAGAAAGACAGAAAACAGAACA-AGAAAGACAG AAGACAAATAAGA-GTGAGATAGAGTTAGAACAAGAAAGAC--------- ------------AAAAAACAAACAAGAGTGGGATAGAACTCGCTAATAGT CAAATAAAAGCAGAACAAGAAAGACAAAAGACAGAACAAGAAAAACA--- AAAAGCAAATAAGAGTGAGATAGAGT----------TAGAACAGCAAAAA CAAAAGACA---------------------ATTAATACACAAAGAGATTT GATTAA-AGAACAGAAAGATTTCATTAAAGAAACA--------------- ------ #J254_locus1_Red_NK -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- ---------------------GAACAAGAAAAAAAGGAAGCAAATAAGAG TGGGATAGAACTAGAACAAGAAAGACAGAAAACAGAACA-AGAAAGACA- -------------------------------------------------- -------------GAAAACAAACAAGAGTGGGATAGAACTCGCTAATAGT CAAATAAAAGCAGAACAAGAAAGACAAAAGACAGAACAAGAAAAACA--- AAAAGCAAATAAAAGTGAGATAGAGT----------TAGAACAGCAAAAA CAAAAGACA---------------------AACAATACACAAAAAGATCT CATTAACAAAGCA------------------------------------- ------ #26695_locus2_Red_NK -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- ------------GAACAAGAAAAAAAGGAAGCTGAAAACGCTAGGGA--- TAGAGCGAACAAGAGTGGGATAGAAC----------TGGAACAGGAAAAA CAAAAGACC---------------------ATTAAAGAACAAAAAGATTT AGTTAAAAAAGCA------------------------------------- ------ #J254_locus2_Red_EQ -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- --------------------------------------GAACAAGAAAAA CAAAAGACA---------------------ATTAATACACAGAAAGATTT CATTAAAGAAACA------------------------------------- ------ #J166_locus2_Green_KD -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------------- -------------------------------------------GACCGGG ACACCCAAGGCGGACCAGAAAACCAA--------GGCCGACCAG--AAAA CAAAAGCCA---------------------ACCATTC--CCGGAAGGTTC GGTTAAAAAGCC-------------------------------------- ------