strainWaLL          -----------------CCTCCTTTCTAAGGAAACCAA-TAAAATCAATCATCTTCAGTT 42
strainPLL           -------------------------TAAGGAAAACCAA-TAAAATCAATCATCTTCAGTT 34
papaya              -----------------CCTCCTTTCTAAGGAAACCAAGTAAAATCAATCATCTTCAGTT 43
SPLL-V4             -----------------CCTCCTTTCTAAGGAAACCAA-TAAAATCAATCATCTTCAGTT 42
Sunn-hemp           -----------------CCTCCTTTCTAAGGAAACCAA-TAAAATCAATCATCTTCAGTT 42
PYCcwb              -----------------CCTCCTTTCTAAGGAAAACCAATAAAATCAATCATCTTCAGTT 43
strainPoiBI         --------------------------TAAGGAAA--AAATAAAATTA-TCATCTTCAGTT 31
grapevine           -----------------CCTCCTTTCTAAGGATAA-------AGTTA-TCATCTTCAGTT 35
Stolbur             -----------------CCTCCTTTCTAAGGATAA-------AGTTA-TCATCTTCAGTT 35
Phytoplasmasp.      GGGGATGGATCACCTCCTTTCTAAGGAAAAGAAAATTTTTTAAATTT-TCATCTTCAGTT 59
strainCWL-A         ---------------------TAAGGAAAAGAAAATTTTTTAAATTT-TCATCTTCAGTT 38
strainSGS-A         -------------------------TAAGGAATAATTTTTTAAATTT-TCATCTTCAGTT 34
Sugarcane           ----------------CCTCCTTTCTAAGGAATAATTTTTTAAATAT-TCATCTTCAGTT 43
                                               *   * *        * *   ************

strainWaLL          TTGAAAGACTTAGGATAAC-------TAAGTTTTTCTTCGTG-ACTTCACGAA----GGG 90
strainPLL           TTGAAAGACTTAGGATAAC-------TAAGTTTTTCTTCGTG-ACTTCACGAA----GGG 82
papaya              TTGAAAGACTTAGG-CAAC-------TAAGTTTTTCTTCGTG-ACTTCACGAA----GGG 90
SPLL-V4             TTGAAAGACTTAGG-CAAC-------TAAGTTTTTCTTCGTG-ACTTCACGAA----GGG 89
Sunn-hemp           TTGAAAGACTTAGG-CAAC-------TAAGTTTTTCTTCGTG-ACTTCACGAA----GGG 89
PYCcwb              TTGAAAGACTTAGGATAAC-------TAAGTTTTTCTTCGTG-ACTTCACGAA----GGG 91
strainPoiBI         TTGAAAGACTTAGAAAATTCA-----TAAGTTTTTCTTTTTTTAAGGCATTAA----GGG 82
grapevine           TTGAGAGACTTAAGA------------AAGTTTTTCATTTTTTAAGATTCG-------GG 76
Stolbur             TTGAGAGACTTAAGA------------AAGTTTTTCATTTTTTAAGATTCG-------GG 76
Phytoplasmasp.      TTGAAAGACTTAGTTCTAATAAGTAATAAGTTTTTCTCTTTTAAGAAAAAGGAA---GGG 116
strainCWL-A         TTGAAAGACTTAGTTCTAATAAGTAGTAAGTTTTTCTCTTTTAAGAAAAAGGAA---GGG 95
strainSGS-A         TTGAAAGACTTAGTTCTTAT-------AAGTTTTTCTTTTTTAAGGAAAAGAAAAATGGG 87
Sugarcane           TTGAAAGACTTAGTTCTTAT-------AAGTTTTTCTTTTTTAAGGAAAAGAAAA-TGGG 95
                    **** *******               *********    *  *              **

strainWaLL          CCTATAGCTCAGTTGGTTAGAGCACACGCCTGATAAGCGTGAGGTCGGTGGTTCAAGTCC 150
strainPLL           CCTATAGCTCAGTTGGTTAGAGCACACGCCTGATAAGCGTGAGGTCGGTGGTTCAAGTCC 142
papaya              CCTATAGCTCAGTTGGTTAGAGCACACGCCTGATAAGCGTGAGGTCGGTGGTTCAAGTCC 150
SPLL-V4             CCTATAGCTCAGTTGGTTAGAGCACACGCCTGATAAGCGTGAGGTCGGTGGTTCAAGTCC 149
Sunn-hemp           CCTATAGCTCAGTTGGTTAGAGCACACGCCTGATAAGCGTGAGGTCGGTGGTTCAAGTCC 149
PYCcwb              CCTATAGCTCAGTTGGTTAGAGCACACGCCTGATAAGCGTGAGGTCGGTGGTTCAAGTCC 151
strainPoiBI         CCTATAGCTCAGCTGGTTAGAGCACACGCCTGATAAGCGTGAGGTCGGTGGTTCAAGTCC 142
grapevine           CCTATAGCTCAGCTGGTTAGAGCACACGCCTGATAAGCGTGAGGTCGGTGGTTCAAGTCC 136
Stolbur             CCTATAGCTCAGCTGGTTAGAGCACACGCCTGATAAGCGTGAGGTCGGTGGTTCAAGTCC 136
Phytoplasmasp.      CCTATAGCTCAGTTGGTTAGAGCACACGCCTGATAAGCGTGAGGTCGATGGTTCAAGTCC 176
strainCWL-A         CCTATAGCTCAGTTGGTTAGAGCACACGCCTGATAAGCGTGAGGTCGATGGTTCAAGTCC 155
strainSGS-A         CCTATAGCTCAGTTGGTTAGAGCACACGCCTGATAAGCGTGAGGTCGATGGTTCAAGTCC 147
Sugarcane           CCTATAGCTCAGTTGGTTAGAGCACACGCCTGATAAGCGTGAGGTCGATGGTTCAAGTCC 155
                    ************ ********************************** ************

strainWaLL          ATTTAGGCCCACCAG-----------AGTTATAGGTGTCG---TAAGAACACAAA-TTCT 195
strainPLL           ATTTAGGCCCACCAG-----------AGTTATAGGTTTCG---TAGGAACACAAA-TTCT 187
papaya              ATTTAGGCCCACCAG-----------AGTTATAGGTTTCG---TAAGAACACAAA-TTCT 195
SPLL-V4             ATTTAGGCCCACCAG-----------AGTTATAGGTTTCG---TAAGAACACAAA-TTCT 194
Sunn-hemp           ATTTAGGCCCACCAG-----------AGTTATAGGTTTCG---TAAGAACACAAA-TTCT 194
PYCcwb              ATTTAGGCCCACCAG-----------AGTTATAGGTTTCG---TAGGAACACAAA-TTCT 196
strainPoiBI         ATTTAGGCCCACCAGTTTATTTTAAAAGTTATAAGCACTG---TCTTAAAAAAAAGTTCT 199
grapevine           ATTTAGGCCCACCAA-------AATAGGTCACATCT----------TAAAAAAG--CTCT 177
Stolbur             ATTTAGGCCCACCAA-------AATAGGTCACATCT----------TAAAAAAG--CTCT 177
Phytoplasmasp.      ATTTAGGCCCACCAACTGATCAATAAGGTCATCTTT--CTAATTCTTAAAAAAA-GTTCT 233
strainCWL-A         ATTTAGGCCCACCAACTGATCAATAAGGTCATCTTT--CTGATTCTTAAAAAAA-GTTCT 212
strainSGS-A         ATTTAGGCCCACCAACTGA--AAAAAGGTCATTTTTTTCTAATTCTTAAAAAAA-GTTCT 204
Sugarcane           ATTTAGGCCCACCAACTGAA-AAAAAGGTCTTTTTT--CTAATTCTTAAAAAAAAGTTCT 212
                    **************             **                  ** * *    ***

strainWaLL          TTGAAAA-TTAGGTAAATAATAGTTATTTTTCCGGAACATTAAAGGAAATAAGAGCGCAC 254
strainPLL           TTGAAAA-TTAGGTAAATAATAGTTATTTATCCGGAACATTAAAGGAAATAAGAGCGCAC 246
papaya              TTGAAAA-TTAGGTAAATAATAGTTATTTATCCGGAACATTAAAGGAAATAAGA------ 248
SPLL-V4             TTGAAAA-TTAGGTAAATAATAGTTATTTATCCG-------------------------- 227
Sunn-hemp           TTGAAAA-TTAGGTAAATAATAGTTATTTATCCGGAACATTAAAGGAAATAAGAGCGCAC 253
PYCcwb              TTGAAAA-TTAGGTAAATAATAGTTATTTATCCG-------------------------- 229
strainPoiBI         TTGAAAA-GTAGATAAACA-TAGTAAAATC------------------------------ 227
grapevine           TTGAAAA-GTAGATAAACAAAGGTTACAAAATTAAAGG---------------------- 214
Stolbur             TTGAAAA-GTAGATAAACAAAGGTTAGAAAATTAAAGG---------------------- 214
Phytoplasmasp.      TTGAAAAAGTAGATAAACAAAG--TAAAATAATAGAAATCAAAGG--------------- 276
strainCWL-A         TTGAAAAAGTAGATAAACAAAG--TAAAATAATAG------------------------- 245
strainSGS-A         TTGAAAA-GTAGATAAACAAAG--TAAAATTTTAAAAATCAAAGG--------------- 246
Sugarcane           TTGAAAA-GTAGATAAACAAAG--TATTTTTTTAAAAATCAAAGGAATCAAGGGCGTACA 269
                    *******  *** **** *      *