Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,976,582	T→G	Y147S (TAC→TCC)	araH ←	arabinose ABC transporter permease AraH

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,976,582	0	T	G	100.0%	77.5 / NA	21	Y147S (TAC→TCC)	araH	arabinose ABC transporter permease AraH
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (9/12);  total (9/12)

GCGACGGTGAGCCAGATTGGCGCAGGCAGACCGAACCAGTTGGCGTAACCAAGGGCAAAGAAGCTTTCATCTTCGATACCGACCGCTTTACCGTCTGAAATGATGTACGCCAGACCTCGAACAATCTGCATCGTTGCCAATGTCGTGATCAGAGCATTTATTTTCAGTTTGGCGATAACAAAGCCATTGACCAGGCCACAGAGAACGCCCAGCAACAACCCCGCTGCCACGCC  >  NZ_CP009273/1976477‑1976709                                                                                                          |                                                                                                                                gcgACGGTGAGCCAGATTGGCGCAGGCAGACCGAACCAGTTGGCGTAACCAAGGGCAAAGAAGCTTTCATCTTCGATACCGACCGCTTTACCGTCTGAAATGATGGACGCCAGACCTCGAACAATCTGCATCGTTGCCa                                                                                                <  1:321031/139‑1 (MQ=255) gcgACGGTGAGCCAGATTGGCGCAGGCAGACCGAACCAGTTGGCGTAACCAAGGGCAAAGAAGCTTTCATCTTCGATACCGACCGCTTTACCGTCTGAAATGATGGACGCCAGACCTCGAACAATCTGCATCGTTGCCa                                                                                                <  1:329559/139‑1 (MQ=255)                          gcagACCGAACCAGTTGGCGTAACCAAGGGCAAAGAAGCTTTCATCTTCGATACCGACCGCTTTACCGGCTGAAATGATGGACGCCAGACCTCGAACAATCTGCATCGTTGCCAATGTCGTGATCAGAGCATTTAtttt                                                                       <  2:179191/139‑1 (MQ=255)                              aCCGAACCAGTTGGCGTAACCAAGGGCAAAGAAGCTTTCATCTTCGATACCGACCGCTTTACCGTCTGAAATGATGGACGCCAGGCCTCGAACAATCTGCATCGTTGCCAATGTCGTGATCAGAGCATTTATTTTCAGt                                                                   <  2:64933/139‑1 (MQ=255)                               ccGAACCAGTTGGCGTAACCAAGGGCAAAGAAGCTTTCATCTTCGATACCGACCGCTTTACCGTCTGAAATGATGGACGCCAGACCTCGAACAATCTGCATCGTTGCCAATGTCGTGATCAGAGCATTTATTTTCAGtt                                                                  >  1:440606/1‑139 (MQ=255)                                            cGTAACCAAGGGCAAAGAAGCTTTCATCTTCGATACCGACCGCTTTACCGTCTGAAATGATGGACGCCAGACCTCGAACAATCTGCATCGTTGCCAATGTCGTGATCAGAGCATTTATTTTCAGTTTGGCGATAACa                                                       >  1:370080/1‑137 (MQ=255)                                                aCCAAGGGCAAAGAAGCTTTCATCTTCGATACCGACCGCTTTACCGTCTGAAATGATGGACGCCAGACCTCGAACAATCTGCATCGTTGCCAATGTCGTGATCAGAGCATTTATTTTCAGTTTGGCGATAACAAAGCCa                                                 <  2:440606/139‑1 (MQ=255)                                                  cAAGGGCAAAGAAGCTTTCATCTTCGATACCGACCGCTTTACCGTCTGAAATGATGGACGCCAGACCTCGAACAATCTGCATCGTTGCCAATGTCGTGATCAGAGCATTTATTTTCAGTTTGGCGATAACAAAGCCAtt                                               <  1:46708/139‑1 (MQ=255)                                                       gCAAAGAAGCTTTCATCTTCGATACCGACCGCTTTACCGTCTGAAATGATGGACGCCAGACCTCGAACAATCTGCATCGTTGCCAATGTCGTGATCAGAGCATTTATTTTCAGTTTGGCGATAACAAAGCCATTGACCa                                          <  1:167333/139‑1 (MQ=255)                                                        cAAAGAAGCTTTCATCTTCGATACCGACCGCTTTACCGTCTGAAATGATGGACGCCAGACCTCGAACAATCTGCATCGTTGCCAATGTCGTGATCAGAGCATTTATTTTCAGTTTGGCGATAACAAAGCCATTGACCAg                                         >  1:293032/1‑139 (MQ=255)                                                          aagaagCTTTCATCTTCGATACCGACCGCTTTACCGTCTGAAATGATGGACGCCAGACCTCGAACAATCTGCATCGTTGCCAATGTCGTGATCAGAGCATTTATTTTCAGTTTGGCGATAACAAAGCCATTGACCAGGc                                       >  2:555791/1‑139 (MQ=255)                                                           agaagCTTTCATCTTCGATACCGACCGCTTTACCGTCTGAAATGATGGACGcc                                                                                                                            <  2:349796/53‑1 (MQ=255)                                                           agaagCTTTCATCTTCGATACCGACCGCTTTACCGTCTGAAATGATGGACGcc                                                                                                                            >  1:349796/1‑53 (MQ=255)                                                           agaagCTTTCATCTTCGATACCGACCGCTTTACCGTCTGAAATGATGGACGCCAGACCTCGAACAATCTGCATCGTTGCCAATGTCGTGATCAGAGCATTTATTTTCAGTTTGGCGATAACAAAGCCATTGACCAGGc                                       >  2:389197/1‑138 (MQ=255)                                                                cTTTCATCTTCGATACCGACCGCTTTACCGTCTGAAATGATGGACGCCAGACCTCGAACAATCTGCATCGTTGCCAATGTCGTGATCAGAGCATTTATTTTCAGTTTGGCGATAACAAAGCCATTGACCAGGCcaca                                   >  1:541884/1‑137 (MQ=255)                                                                               ccgaccgCTTTACCGTCTGAAATGATGGACGCCAGACCTCGAACAATCTGCATCGTTGCCAATGTCGTGATCAGAGCATTTATTTTCAGTTTGGCGATAACAAAGCCATTGACCAGGCCACAGAGAACGCCCAGcaac                   <  2:420731/138‑1 (MQ=255)                                                                                           ccGTCTGAAATGATGGACGCCAGACCTCGAACAATCTGCATCGTTGCCAATGTCGTGATCAGAGCATTTATTTTCAGTTTGGCGATAACAAAGCCATTGACCAGGCCACAGAGAACGCCCAGCAACAACCCCGCTGCCa      <  2:146012/139‑1 (MQ=255)                                                                                              tCTGAAATGATGGACGCCAGACCTCGAACAATCTGCATCGTTGCCAATGTCGTGATCAGAGCATTTATTTTCAGTTTGGCGATAACAAAGCCATTGACCAGGCCACAGAGAACGCCCAGCAACAACCCCGCTGCCACGc   >  2:409104/1‑139 (MQ=255)                                                                                                tGAAATGATGGACGCCAGACCTCGAACAATCTGCATCGTTGCCAATGTCGTGATCAGAGCATTTATTTTCAGTTTGGCGATAACAAAGCCATTGAcc                                           >  1:493402/1‑97 (MQ=255)                                                                                                tGAAATGATGGACGCCAGACCTCGAACAATCTGCATCGTTGCCAATGTCGTGATCAGAGCATTTATTTTCAGTTTGGCGATAACAAAGCCATTGAcc                                           <  2:493402/97‑1 (MQ=255)                                                                                                  aaaTGATGGACGCCAGACCTCGAACAATCTGCATCGTTGCCAATGTCGTGATCAGAGCATTTATTTTCAGTTTGGCGATAACAAAGCCATTGACCAGGCCACAGAGAACGCCCAGCAACAACCCCGCTGCCACGcc  <  1:561800/136‑1 (MQ=255)                                                                                                          |                                                                                                                                GCGACGGTGAGCCAGATTGGCGCAGGCAGACCGAACCAGTTGGCGTAACCAAGGGCAAAGAAGCTTTCATCTTCGATACCGACCGCTTTACCGTCTGAAATGATGTACGCCAGACCTCGAACAATCTGCATCGTTGCCAATGTCGTGATCAGAGCATTTATTTTCAGTTTGGCGATAACAAAGCCATTGACCAGGCCACAGAGAACGCCCAGCAACAACCCCGCTGCCACGCC  >  NZ_CP009273/1976477‑1976709

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑