Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_013198	1,873,063	Δ1 bp	coding (742/795 nt)	LGG_01843	hypothetical protein

Read alignment evidence...
	seq id	position		change	freq	score	reads	annotation	genes	product
*	NC_013198	1,873,063	0	G→.	100.0%	263.3	56	coding (742/795 nt)	LGG_01843	hypothetical protein
Reads supporting (aligned to +/- strand):  new base (16/38):  ref base (0/2):  total (16/40)

CGCCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTAGGCGGTGATGGCC.GGGCTTTGGCCATTGCGGCTGAGGTCCTTACACGCAGACTTCTGCGCCGGCGAACG  >  NC_013198/1872967‑1873127                                                                                                    |                                                                  cgcCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATg                                                              <  24:575974/101‑1 cgcCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATg                                                              <  20:487494/101‑1 cgcCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATg                                                              <  8:575974/101‑1 cgcCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATg                                                              <  13:58698/101‑1 cgcCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATg                                                              <  4:487494/101‑1 cgcCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATg                                                              <  29:58698/101‑1  gcCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATgg                                                             >  9:721334/1‑101  gcCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATgg                                                             >  25:721334/1‑101   cccAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGc                                                            >  20:520320/1‑101   cccAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGc                                                            >  4:520320/1‑101   cccAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTT.GGTCGTGATGGc                                                            <  23:25997/101‑1   cccAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTT.GGTCGTGATGGc                                                            <  7:25997/101‑1    ccAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGcc                                                           >  13:1065974/1‑101    ccAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGcc                                                           >  29:1065974/1‑101    ccAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGcc                                                           >  28:1227605/1‑101    ccAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGcc                                                           >  12:1227605/1‑101     cAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGGGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGcct                                                          <  24:592844/101‑2     cAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGGGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGcct                                                          <  8:592844/101‑2          tCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAGCCGGCGCGCTTAGAAACCGGAGTGTAAGTGGCCTTGGGCG.TAATGGCC.GGGCtt                                                    <  4:1169113/101‑1          tCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAGCCGGCGCGCTTAGAAACCGGAGTGTAAGTGGCCTTGGGCG.TAATGGCC.GGGCtt                                                    <  20:1169113/101‑1           ccTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATGGTGAGCGTGAACCAGCCCGGTTAGAAACCGGAGCATAAGTGGCCTTGGGCG.TGATGACC.GGGc                                                      >  25:51375/1‑101           ccTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATGGTGAGCGTGAACCAGCCCGGTTAGAAACCGGAGCATAAGTGGCCTTGGGCG.TGATGACC.GGGc                                                      >  9:51375/1‑101           ccTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCtt                                                    <  20:242851/101‑1           ccTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCtt                                                    <  4:242851/101‑1           acTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCtt                                                    >  25:875897/2‑101           acTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCtt                                                    >  9:875897/2‑101              tATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATGGTGAGCGTGAACCAGCCCGGTTAGAAACCGGAGCATAAGTGGCCTTGGGCG.TGATGACC.GGGCttt                                                   <  12:1181212/101‑1              tATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATGGTGAGCGTGAACCAGCCCGGTTAGAAACCGGAGCATAAGTGGCCTTGGGCG.TGATGACC.GGGCttt                                                   <  28:1181212/101‑1               aTGTGCAGGTTTCTGGGCTGGTGAACGCGTTATGGTGAGCGTGAACCAGCCCGGTTAGAAACCGGAGCATAAGTGGCCTTGGGCG.TGATGACC.GGGCTTTg                                                  <  11:109957/101‑1               aTGTGCAGGTTTCTGGGCTGGTGAACGCGTTATGGTGAGCGTGAACCAGCCCGGTTAGAAACCGGAGCATAAGTGGCCTTGGGCG.TGATGACC.GGGCTTTg                                                  <  22:521397/101‑1               aTGTGCAGGTTTCTGGGCTGGTGAACGCGTTATGGTGAGCGTGAACCAGCCCGGTTAGAAACCGGAGCATAAGTGGCCTTGGGCG.TGATGACC.GGGCTTTg                                                  <  6:521397/101‑1               aTGTGCAGGTTTCTGGGCTGGTGAACGCGTTATGGTGAGCGTGAACCAGCCCGGTTAGAAACCGGAGCATAAGTGGCCTTGGGCG.TGATGACC.GGGCTTTg                                                  <  27:109957/101‑1               aTGTGCAGGTTTCTGGGCTGGCGAACGCGTTATGGTGAGCGTGAACCAGCCCGGTTAGAAACCGGAGCATAAGTGGCCTTGGGCG.TGATGACC.GGGCTTTg                                                  >  30:1181165/1‑101               aTGTGCAGGTTTCTGGGCTGGCGAACGCGTTATGGTGAGCGTGAACCAGCCCGGTTAGAAACCGGAGCATAAGTGGCCTTGGGCG.TGATGACC.GGGCTTTg                                                  >  14:1181165/1‑101                 gtgCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCAt                                             <  26:336055/101‑1                 gtgCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCAt                                             <  10:336055/101‑1                   gCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTg                                           >  21:977866/1‑101                   gCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTg                                           >  5:977866/1‑101                    cAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGc                                          <  7:1050850/101‑1                    cAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGc                                          <  23:1050850/101‑1                               gCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTcc                               <  15:973349/101‑1                               gCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTcc                               <  31:973349/101‑1                               gCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGACCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTcc                               <  10:500727/101‑1                               gCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGACCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTcc                               <  26:500727/101‑1                                 tGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTCCtt                             <  21:25333/101‑1                                 tGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTCCtt                             <  5:25333/101‑1                                  ggCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTCCTTa                            <  11:413806/101‑1                                  ggCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTCCTTa                            <  12:703468/101‑1                                  ggCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTCCTTa                            <  28:703468/101‑1                                  ggCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTCCTTa                            <  27:413806/101‑1                                   gCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTCCTTac                           <  1:667962/101‑1                                   gCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTCCTTac                           <  17:667962/101‑1                                      aaCGCGTTATG...AGCGTGAACCTTCGCGCTTATTGATCGGAGGGTAAGGGGCCT.ATGCCGTGAGCGCC.TGTGCTTGGCCATCGCGACTAAGGTCCTCacacc                        <  12:943403/101‑2                                      aaCGCGTTATG...AGCGTGAACCTTCGCGCTTATTGATCGGAGGGTAAGGGGCCT.ATGCCGTGAGCGCC.TGTGCTTGGCCATCGCGACTAAGGTCCTCacacc                        <  28:943403/101‑2                                      aaCGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGGTCGGAGTGTAAGTGGGCTTGGGCG.TGATGGCCTGGGCTT.GGCCCTTGCGACCAAGGGCCTTacact                        >  6:149577/1‑100                                      aaCGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGGTCGGAGTGTAAGTGGGCTTGGGCG.TGATGGCCTGGGCTT.GGCCCTTGCGACCAAGGGCCTTacact                        >  22:149577/1‑100                                      aaCGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTCCTTacact                        <  28:498787/101‑2                                      aaCGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTCCTTacact                        <  8:1057494/101‑2                                      aaCGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTCCTTacact                        <  12:498787/101‑2                                      aaCGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTCCTTacact                        <  24:1057494/101‑2                                                               gcgcggTTAGCAATCGGAGTGTAAGTGGCCTTAAGCG.TGATGGCC.GGGCTTTGGCCATTGCGGCTGAGGTCCTTACACGCAGACTTCTGCGCCGGCGAAcg  >  7:385848/1‑101                                                               gcgcggTTAGCAATCGGAGTGTAAGTGGCCTTAAGCG.TGATGGCC.GGGCTTTGGCCATTGCGGCTGAGGTCCTTACACGCAGACTTCTGCGCCGGCGAAcg  >  23:385848/1‑101                                                                                                    |                                                                  CGCCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTAGGCGGTGATGGCC.GGGCTTTGGCCATTGCGGCTGAGGTCCTTACACGCAGACTTCTGCGCCGGCGAACG  >  NC_013198/1872967‑1873127 Base quality scores:  ATCG  < 3 ≤  ATCG  < 18 ≤  ATCG  < 28 ≤  ATCG  < 34 ≤  ATCG  < 41 ≤  ATCG