Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,142,011	C→T	A71T (GCC→ACC)	frwA ←	putative PTS enzyme: Hpr, enzyme I and II components

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,142,011	0	C	T	100.0%	186.1 / NA	54	A71T (GCC→ACC)	frwA	putative PTS enzyme: Hpr, enzyme I and II components
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (23/31);  total (23/31)

CGGATTCAGATTGGTCAGTGAAACCGGCAGTGGTTCCAGTTCGTCAGATTTAACTTCCGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGCCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCAGTGCGCAGGTTATGCCACTCAATTTGTGATGAAAAAGTATTACA  >  NC_000913/4141877‑4142143                                                                                                                                       |                                                                                                                                     cGGATTCAGATTGGTCAGTGAAACCGGCAGTGGTTCCAGTTCGTCAGATTTAACTTCCGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCg                                                                                                                                  <  1:638170/139‑1 (MQ=255)          aTTGGTCAGTGAAACCGGCAGTGGTTCCAGTTCGTCAGATTTAACTTCCGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGt                                                                                                                         <  2:1773592/139‑1 (MQ=255)                    gAAACCGGCAGTGGTTCCAGTTCGTCAGATTTAACTTCCGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGt                                                                                                               <  2:1235181/139‑1 (MQ=255)                        ccGGCAGTGGTTCCAGTTCGTCAGATTTAACTTCCGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAACCGCTGGGGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATc                                                                                                           <  1:389710/139‑1 (MQ=255)                         cGGCAGTGGTTCCAGTTCGTCAGATTTAACTTCCGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATcg                                                                                                          >  1:1150516/1‑139 (MQ=255)                             aGTGGTTCCAGTTCGTCAGATTTAACTTCCGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATcgcccg                                                                                                      <  2:933901/139‑1 (MQ=255)                               tGGTTCCAGTTCGTCAGATTTAACTTCCGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATcgcccgcc                                                                                                    >  1:445271/1‑139 (MQ=255)                                      aGTTCGTCAGATTTAACTTCCGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTAt                                                                                             <  1:1318967/139‑1 (MQ=255)                                         tCGTCAGATTTAACTTCCGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTa                                                                                                                        <  2:1094020/109‑1 (MQ=255)                                         tCGTCAGATTTAACTTCCGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTa                                                                                                                        >  1:1094020/1‑109 (MQ=255)                                            tCAGATTTAACTTCCGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATcgcc                                                                                                        >  2:1688106/1‑122 (MQ=255)                                            tCAGATTTAACTTCCGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATcgcc                                                                                                        <  1:1688106/122‑1 (MQ=255)                                                aTTTAACTTCCGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGt                                                                                                               >  1:1315755/1‑111 (MQ=255)                                                aTTTAACTTCCGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGt                                                                                                               <  2:1315755/111‑1 (MQ=255)                                                    aaCTTCCGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCgg                                                                                                                                 <  2:817853/89‑1 (MQ=255)                                                    aaCTTCCGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCgg                                                                                                                                 >  1:817853/1‑89 (MQ=255)                                                          cGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCa                                                                                                   >  1:885403/1‑113 (MQ=255)                                                          cGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCa                                                                                                   <  2:885403/113‑1 (MQ=255)                                                          cGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAgg                                                                         >  2:1686417/1‑139 (MQ=255)                                                                cggcgCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCtt                                                                   >  2:1082906/1‑139 (MQ=255)                                                                cggcgCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCtt                                                                   <  1:256803/139‑1 (MQ=255)                                                                     cATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGc                                                              >  2:1233148/1‑139 (MQ=255)                                                                                   aaTTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGt                                                <  2:1619799/139‑1 (MQ=255)                                                                                   aaTTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGt                                                <  1:1233148/139‑1 (MQ=255)                                                                                    aTTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGt                                                            >  1:555328/1‑126 (MQ=255)                                                                                    aTTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGt                                                            <  2:555328/126‑1 (MQ=255)                                                                                     ttCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCa                                              >  1:1099685/1‑139 (MQ=255)                                                                                     ttCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCa                                              >  1:39073/1‑139 (MQ=255)                                                                                     ttCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCa                                              <  1:1686417/139‑1 (MQ=255)                                                                                          cgcgCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCAGTgcg                                         >  1:1423073/1‑139 (MQ=255)                                                                                          cgcgCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCAGTgcg                                         <  2:1613879/139‑1 (MQ=255)                                                                                          cgcgCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCAGTgcg                                         <  2:1763220/139‑1 (MQ=255)                                                                                          cgcgCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCAGTgcg                                         <  2:1423073/139‑1 (MQ=255)                                                                                          cgcgCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCAGTgcg                                         <  2:1099685/139‑1 (MQ=255)                                                                                                        cTTAAACGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGTGGTCAGTGCGCAGGTTATGCCACt                           <  2:1150516/139‑1 (MQ=255)                                                                                                           aaaCGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATc                                                                                                           <  1:1007994/56‑1 (MQ=255)                                                                                                           aaaCGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATc                                                                                                           >  2:1007994/1‑56 (MQ=255)                                                                                                           aaaCGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCACCCGCCAGCGTATCGGTg                                                                                        >  1:1758830/1‑75 (MQ=255)                                                                                                           aaaCGCTGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCACCCGCCAGCGTATCGGTg                                                                                        <  2:1758830/75‑1 (MQ=255)                                                                                                                 tGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCAGTgcg                                         >  2:520459/1‑116 (MQ=255)                                                                                                                 tGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCAGTgcg                                         <  2:1486349/116‑1 (MQ=255)                                                                                                                 tGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCAGTgcg                                         >  1:1486349/1‑116 (MQ=255)                                                                                                                 tGGTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCAGTGCGCAGGTTATGCCACTCAATTtgtg                  >  1:1672751/1‑139 (MQ=255)                                                                                                                 tGGTGCGCTGCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCAGTgcg                                         <  1:520459/116‑1 (MQ=255)                                                                                                                   gTGCGCTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCAGTGCGCAGGTTATGCCACTCAATTTGtgat                >  2:764091/1‑139 (MQ=255)                                                                                                                      cgcTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTgg                                                                                                                   >  2:568573/1‑37 (MQ=255)                                                                                                                      cgcTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTgg                                                                                                                   <  1:568573/37‑1 (MQ=38)                                                                                                                        cTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCTAATCAgcgc                                                                             >  1:1161722/1‑73 (MQ=255)                                                                                                                        cTTCCTGTTCGTCGGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCTATCAgcgc                                                                             <  2:1161722/73‑1 (MQ=255)                                                                                                                                tcgtcgGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATGAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCAGTGCGCAGGTTATGCCACTCAATTTGTGATGAAAAAGTATTac   <  1:1082906/139‑1 (MQ=255)                                                                                                                                 cgtcgGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCAGTGCGCAGGTTATGCCACTCAATTTGTGATGAAAAAGTATTaca  <  2:1485303/139‑1 (MQ=255)                                                                                                                                 cgtcgGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCAGTGCGCAGGTTATGCCACTCAATTTGTGATGAAAAAGTATTaca  <  2:39073/139‑1 (MQ=255)                                                                                                                                   tcgGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCAGTgcg                                         <  2:231420/98‑1 (MQ=255)                                                                                                                                   tcgGTCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCAGTgcg                                         >  1:231420/1‑98 (MQ=255)                                                                                                                                       |                                                                                                                                     CGGATTCAGATTGGTCAGTGAAACCGGCAGTGGTTCCAGTTCGTCAGATTTAACTTCCGCCAGCGGCGCATCGCAGTGGGGGAATTCATCGCGCAGCCATTGGCTTAAACGCTGGTGCGCTTCCTGTTCGTCGGCCCCGGAAATCAGTAACTGGCAGTTATCGCCCGCCAGCGTATCGGTGCCAATCAGCGCAAGGGCGCTTTTGGCGTTGCCCTTGCGGTCAGTGCGCAGGTTATGCCACTCAATTTGTGATGAAAAAGTATTACA  >  NC_000913/4141877‑4142143

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑