Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_013198	1,873,058	A→G	P249P (CCT→CCC)	LGG_01843	hypothetical protein

Read alignment evidence...
	seq id	position		change	freq	score	reads	annotation	genes	product
*	NC_013198	1,873,058	0	A→G	100.0%	240.3	62	P249P (CCT→CCC)	LGG_01843	hypothetical protein
Reads supporting (aligned to +/- strand):  new base (20/38):  ref base (2/0):  total (22/40)

CATTGCGCCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTAGGCGGTGATGGCC.GGGCTTTGGCCATTGCGGCTGAGGTCCTTACACGCAGACTTCTGCGCCGGCGAACG  >  NC_013198/1872962‑1873127                                                                                                    |                                                                       cATTGCGCCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCg                                                                    >  10:517725/1‑101 cATTGCGCCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCg                                                                    >  23:910206/1‑101 cATTGCGCCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCg                                                                    >  26:517725/1‑101 cATTGCGCCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCg                                                                    >  7:910206/1‑101 cATTGCGCCCAAGGGCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCg                                                                    >  25:1169784/1‑101 cATTGCGCCCAAGGGCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCg                                                                    >  9:1169784/1‑101      cgcCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATg                                                              <  29:58698/101‑1      cgcCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATg                                                              <  24:575974/101‑1      cgcCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATg                                                              <  8:575974/101‑1      cgcCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATg                                                              <  4:487494/101‑1      cgcCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATg                                                              <  13:58698/101‑1      cgcCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATg                                                              <  20:487494/101‑1       gcCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATgg                                                             >  25:721334/1‑101       gcCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATgg                                                             >  9:721334/1‑101        cccAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGc                                                            >  4:520320/1‑101        cccAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGc                                                            >  20:520320/1‑101        cccAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTT.GGTCGTGATGGc                                                            <  23:25997/101‑1        cccAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTT.GGTCGTGATGGc                                                            <  7:25997/101‑1         ccAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGcc                                                           >  13:1065974/1‑101         ccAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGcc                                                           >  12:1227605/1‑101         ccAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGcc                                                           >  29:1065974/1‑101         ccAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGcc                                                           >  28:1227605/1‑101          cAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGGGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGcct                                                          <  8:592844/101‑2          cAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGGGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGcct                                                          <  24:592844/101‑2               tCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAGCCGGCGCGCTTAGAAACCGGAGTGTAAGTGGCCTTGGGCG.TAATGGCC.GGGCtt                                                    <  20:1169113/101‑1               tCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAGCCGGCGCGCTTAGAAACCGGAGTGTAAGTGGCCTTGGGCG.TAATGGCC.GGGCtt                                                    <  4:1169113/101‑1                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                                                   <  28:1181212/101‑1                   tATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATGGTGAGCGTGAACCAGCCCGGTTAGAAACCGGAGCATAAGTGGCCTTGGGCG.TGATGACC.GGGCttt                                                   <  12:1181212/101‑1                    aTGTGCAGGTTTCTGGGCTGGTGAACGCGTTATGGTGAGCGTGAACCAGCCCGGTTAGAAACCGGAGCATAAGTGGCCTTGGGCG.TGATGACC.GGGCTTTg                                                  <  27:109957/101‑1                    aTGTGCAGGTTTCTGGGCTGGTGAACGCGTTATGGTGAGCGTGAACCAGCCCGGTTAGAAACCGGAGCATAAGTGGCCTTGGGCG.TGATGACC.GGGCTTTg                                                  <  6:521397/101‑1                    aTGTGCAGGTTTCTGGGCTGGTGAACGCGTTATGGTGAGCGTGAACCAGCCCGGTTAGAAACCGGAGCATAAGTGGCCTTGGGCG.TGATGACC.GGGCTTTg                                                  <  22:521397/101‑1                    aTGTGCAGGTTTCTGGGCTGGTGAACGCGTTATGGTGAGCGTGAACCAGCCCGGTTAGAAACCGGAGCATAAGTGGCCTTGGGCG.TGATGACC.GGGCTTTg                                                  <  11:109957/101‑1                    aTGTGCAGGTTTCTGGGCTGGCGAACGCGTTATGGTGAGCGTGAACCAGCCCGGTTAGAAACCGGAGCATAAGTGGCCTTGGGCG.TGATGACC.GGGCTTTg                                                  >  14:1181165/1‑101                    aTGTGCAGGTTTCTGGGCTGGCGAACGCGTTATGGTGAGCGTGAACCAGCCCGGTTAGAAACCGGAGCATAAGTGGCCTTGGGCG.TGATGACC.GGGCTTTg                                                  >  30:1181165/1‑101                      gtgCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCAt                                             <  10:336055/101‑1                      gtgCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCAt                                             <  26:336055/101‑1                        gCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTg                                           >  5:977866/1‑101                        gCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTg                                           >  21:977866/1‑101                         cAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGc                                          <  23:1050850/101‑1                         cAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGc                                          <  7:1050850/101‑1                                    gCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTcc                               <  15:973349/101‑1                                    gCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTcc                               <  31:973349/101‑1                                    gCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGACCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTcc                               <  26:500727/101‑1                                    gCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGACCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTcc                               <  10:500727/101‑1                                      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                        <  8:1057494/101‑2                                           aaCGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTCCTTacact                        <  24:1057494/101‑2                                           aaCGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTCCTTacact                        <  12:498787/101‑2                                           aaCGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTGGGCG.TGATGGCCTGGGCTT.GGCCATTGCGACCAAGGTCCTTacact                        <  28:498787/101‑2                                                                    gcgcggTTAGCAATCGGAGTGTAAGTGGCCTTAAGCG.TGATGGCC.GGGCTTTGGCCATTGCGGCTGAGGTCCTTACACGCAGACTTCTGCGCCGGCGAAcg  >  7:385848/1‑101                                                                    gcgcggTTAGCAATCGGAGTGTAAGTGGCCTTAAGCG.TGATGGCC.GGGCTTTGGCCATTGCGGCTGAGGTCCTTACACGCAGACTTCTGCGCCGGCGAAcg  >  23:385848/1‑101                                                                                                    |                                                                       CATTGCGCCCAAGGTCCTTATGTGCAGGTTTCTGGGCTGGCGAACGCGTTATG...AGCGTGAACCGGCGCGCTTAGGGATCGGAGTGTAAGTGGCCTTAGGCGGTGATGGCC.GGGCTTTGGCCATTGCGGCTGAGGTCCTTACACGCAGACTTCTGCGCCGGCGAACG  >  NC_013198/1872962‑1873127 Base quality scores:  ATCG  < 3 ≤  ATCG  < 18 ≤  ATCG  < 28 ≤  ATCG  < 34 ≤  ATCG  < 41 ≤  ATCG