Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,438,026	T→C	K69E (AAA→GAA)	epmC ←	elongation factor P hydroxylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,438,026	0	T	C	100.0%	137.0 / NA	40	K69E (AAA→GAA)	epmC	elongation factor P hydroxylase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (16/24);  total (16/24)

TATCCCGCCGCCACACAGAACAACCAGTCGAGCGCCTGCGGCTTCACTTCAACATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTTCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGATTCGGTTATACGGTACTTCCGCATCAGCAGGAAGATAGATCGGTTCGTCGTCGCCTTTAATCAGAC  >  NZ_CP009273/2437890‑2438157                                                                                                                                         |                                                                                                                                    tatCCCGCCGCCACACAGAACAACCAGTCGAGCGCCTGCGGCTTCACTTCAACATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTccc                                                                                                                                   <  1:746127/139‑1 (MQ=255)   ttccgccgCCACACAGAACAACCAGTCGAGCGCCTGCGGCTTCACTTCAACATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTcccc                                                                                                                                  <  1:740835/136‑1 (MQ=255)   tCCCGCCGCCACACAGAACAACCAGTCGAGCGCCTGCGGCTTCACTTCAACATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTcccc                                                                                                                                  <  1:750024/138‑1 (MQ=255)   tCCCGCAGCCACACAGAACAACCAGTCGAGCGCCTGCGGCTTCACTTCAACATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTcccc                                                                                                                                  <  1:395651/138‑1 (MQ=255)        ccgccACACAGAACAACCAGTCGAGCGCCTGCGGCTTCACTTCAACATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCaa                                                                                                                             >  1:691751/1‑138 (MQ=255)         cgccACAGAGAACAACCAGTCGAGCGCCTGCGGCTTCACTTCAACATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATa                                                                                                                           <  2:170701/139‑1 (MQ=255)          gccACACAGAACAACCAGTCGAGCGCCTGCGGCTTCACTTCAACATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATa                                                                                                                           >  2:341066/1‑138 (MQ=255)            cacacaGAACAACCAGTCGAGCGCCTGCGGCTTCACTTCAACATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATacac                                                                                                                        <  2:342093/139‑1 (MQ=255)                   aacaacCAGTCGAGCGCCTGCGGCTTCACTTCAACATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGc                                                                                                                  >  1:45512/1‑138 (MQ=255)                        ccAGTCGAGCGCCTGCGGCTTCACTTCAACATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAAtc                                                                                                            >  2:594810/1‑139 (MQ=255)                           gTCGAGCGCCTGCGGCTTCACTTCAACATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCa                                                                                                         >  1:126215/1‑139 (MQ=255)                             cGAGCGCCTGCGGCTTCACTTCAACATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCAt                                                                                                        >  1:248067/1‑138 (MQ=255)                                 cgcCTGCGGCTTCACTTCAACATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAAtt                                                                                                   >  1:180561/1‑139 (MQ=255)                                    cTGCGGCTTCACTTCAACATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTgcg                                                                                                <  1:22359/139‑1 (MQ=255)                                                   aaCATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGcc                                                                                  <  1:106986/138‑1 (MQ=255)                                                   aaCATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGcc                                                                                  <  1:2195/138‑1 (MQ=255)                                                   aaCATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGcc                                                                                  <  2:248067/138‑1 (MQ=255)                                                   aaCATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCa                                                                                 <  2:691751/139‑1 (MQ=255)                                                   aaCATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCa                                                                                 <  2:126215/139‑1 (MQ=255)                                                        cTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAg                                                                             >  1:163508/1‑138 (MQ=255)                                                                  gCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCa                                                                                 >  1:322214/1‑124 (MQ=255)                                                                  gCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCa                                                                                 <  2:322214/124‑1 (MQ=255)                                                                  gCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGa                                                                    <  2:335011/137‑1 (MQ=255)                                                                  gCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGa                                                                    <  2:45512/137‑1 (MQ=255)                                                                  gCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGAtt                                                                  <  2:759985/139‑1 (MQ=255)                                                                  gCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGAtt                                                                  <  2:301783/139‑1 (MQ=255)                                                                   cTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGATTc                                                                 >  1:165082/1‑139 (MQ=255)                                                                              ggCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGATTCGGTTATACGGt                                                      <  2:367377/139‑1 (MQ=255)                                                                              ggCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGATTCGGTTATACGGt                                                      <  2:163508/139‑1 (MQ=255)                                                                                  tCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGATTCGGTTATACGGTACtt                                                  >  2:324942/1‑139 (MQ=255)                                                                                     cgtccgtcCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTccc                                                                                                                                   <  2:57173/55‑1 (MQ=255)                                                                                     cgtccgtcCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTccc                                                                                                                                   >  1:57173/1‑55 (MQ=255)                                                                                         cgtccgGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGATTCGGTTATACGGTACTTCCGCATc                                           <  2:273551/139‑1 (MQ=255)                                                                                             cgGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGATTCGGTTATACGGTACTTCCGCATcagc                                        <  2:89134/138‑1 (MQ=255)                                                                                             cgGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGATTCGGTTATACGGTACTTCCGCATcagc                                        <  1:178826/138‑1 (MQ=255)                                                                                                         gTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGaa                                                                                                     <  1:615532/65‑1 (MQ=255)                                                                                                         gTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGaa                                                                                                     >  2:615532/1‑65 (MQ=255)                                                                                                         gTAGCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGATTCGGTTATACGGTACTTCCGCATCAGCAGGAaga                                 >  2:534936/1‑133 (MQ=255)                                                                                                            gCCGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGATTCGGTTATACGGTACTTCCGCATCAGCAGGAAGATAGATCGGt                        >  2:126245/1‑139 (MQ=255)                                                                                                              cGAAATCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGATTCGGTTATACGGTACTTCCGCATCAGCAGGAAGATAGATCGGTtc                      >  2:40120/1‑139 (MQ=255)                                                                                                                  aTCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGATTCGGTTATACGGTACTTCCGCATCAGCAGGAAGATAGATCGGTtcgtcg                  <  2:548185/139‑1 (MQ=255)                                                                                                                   tCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGATTCGGTTATACGGTACTTCCGCATCAGCAGGAAGATAGATCGGTtcgtcgt                 <  1:534936/139‑1 (MQ=255)                                                                                                                   tCAACCAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGATTCGGTTATACGGTACTTCCGCATCAGCAGGAAGATAGATCGGTtcgtcgt                 <  1:472082/139‑1 (MQ=255)                                                                                                                       ccAGCTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGATTCGGTTATACGGTACTTCCGCATCAGCAGGAAGATAGATCGGTTCGTCGTCGcc             <  2:165082/139‑1 (MQ=255)                                                                                                                           cTCACGGCGCGCTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGATTCGGTTATACGGTACTTCCGCATCAGCAGGAAGATAGATCGGTTCGTCGTCGCCttt          >  2:594008/1‑138 (MQ=255)                                                                                                                                  cgcgcTTCCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGATTCGGTTATACGGTACTTCCGCATCAGCAGGAAGATAGATCGGTTCGTCGTCGCCTTTAATCAGAc  <  1:648041/139‑1 (MQ=255)                                                                                                                                         |                                                                                                                                    TATCCCGCCGCCACACAGAACAACCAGTCGAGCGCCTGCGGCTTCACTTCAACATCTTCAAACTGGCTTTGCGTTTGGGCATCGCGTCCGTCCGGGCAATACCAGTAGCCGAAATCAACCAGCTCACGGCGCGCTTTCCCGGCAATACACCAGTGCGAAATCTCATGAATTGCGCTGGCATAAAAGCCATGAGCAAAGACGATTCGGTTATACGGTACTTCCGCATCAGCAGGAAGATAGATCGGTTCGTCGTCGCCTTTAATCAGAC  >  NZ_CP009273/2437890‑2438157

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑