Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	668,149	A→G	N697N (AAT→AAC)	leuS ←	leucine‑‑tRNA ligase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	668,149	0	A	G	95.9%	170.4 / ‑0.8	49	N697N (AAT→AAC)	leuS	leucine‑‑tRNA ligase
Reads supporting (aligned to +/- strand):  ref base A (1/1);  new base G (23/24);  total (24/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.41e-01

CATCGGTTGGTGCTTTCGCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGATTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTGCCATTCGAGAGT  >  NZ_CP009273/668013‑668277                                                                                                                                         |                                                                                                                                 cATCGGTTGGTGCTTTCGCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGtt                                                                                                                                >  1:373330/1‑139 (MQ=255)      gTTGGTGCTTTCGCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTtcag                                                                                                                           >  2:785/1‑139 (MQ=255)       ttGGTGCTTTCGCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTtcagt                                                                                                                          <  2:710322/139‑1 (MQ=255)             cTTTCGCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAgcg                                                                                                                     <  2:518173/138‑1 (MQ=255)                tCGCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCa                                                                                                                   <  1:307699/137‑1 (MQ=255)                  gCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGTGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCa                                                                                                                <  1:577319/138‑1 (MQ=255)                  gCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCa                                                                                                                <  1:541104/138‑1 (MQ=255)                     aGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCa                                                                                                                <  2:513313/135‑1 (MQ=255)                     aGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCa                                                                                                                >  1:513313/1‑135 (MQ=255)                          gTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAg                                                                                                        <  1:233489/138‑1 (MQ=255)                              atcaGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCg                                                                                                   <  1:38654/139‑1 (MQ=255)                                caGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGc                                                                                                  >  1:687879/1‑138 (MQ=255)                                   cTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACa                                                                                              <  2:352370/139‑1 (MQ=255)                                   cTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACa                                                                                              >  2:686673/1‑139 (MQ=255)                                   cTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACa                                                                                              >  1:736294/1‑139 (MQ=255)                                      cATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATc                                                                                            <  1:552931/138‑1 (MQ=255)                                              ccgcAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGc                                                                                   >  2:471310/1‑139 (MQ=255)                                                gcAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCtg                                                                                 >  1:652335/1‑139 (MQ=255)                                                               aaGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAAcc                                                                   <  1:438868/138‑1 (MQ=255)                                                                aGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAg                                                                 <  2:652335/139‑1 (MQ=255)                                                                      gacgacGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTc                                                             >  2:621654/1‑137 (MQ=255)                                                                      gacgacGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTc                                                             >  2:10286/1‑137 (MQ=255)                                                                            ggCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACg                                                     >  1:391810/1‑139 (MQ=255)                                                                             gCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCtgtg                                                                               <  1:606677/112‑1 (MQ=255)                                                                             gCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCtgtg                                                                               >  2:606677/1‑112 (MQ=255)                                                                             gCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGt                                                    >  2:304572/1‑139 (MQ=255)                                                                                 atatCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGttt                                                  >  2:179311/1‑137 (MQ=255)                                                                                    tcatcGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGa                                             <  2:51728/139‑1 (MQ=255)                                                                                      atcGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGaa                                            <  1:686673/138‑1 (MQ=255)                                                                                      atcGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGaa                                            <  1:302928/138‑1 (MQ=255)                                                                                             aCTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAg                                    >  1:26274/1‑139 (MQ=255)                                                                                              cTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGc                                   <  2:550447/139‑1 (MQ=255)                                                                                              cTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGc                                   <  1:561493/139‑1 (MQ=255)                                                                                                         gTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCacac                        >  1:348423/1‑139 (MQ=255)                                                                                                         gTTTTATGCACATCGCGACGCAGCGCTTTCTGATTTTCAGTCAGCGCATCa                                                                                                                <  2:680320/51‑1 (MQ=255)                                                                                                         gTTTTATGCACATCGCGACGCAGCGCTTTCTGATTTTCAGTCAGCGCATCa                                                                                                                >  1:680320/1‑51 (MQ=255)                                                                                                                    aTCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTg              <  2:427848/138‑1 (MQ=255)                                                                                                                    aTCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTg              >  1:427848/1‑138 (MQ=255)                                                                                                                    aTCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTGc             >  2:182714/1‑139 (MQ=255)                                                                                                                     tCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGc                                   >  2:93787/1‑116 (MQ=255)                                                                                                                     tCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGc                                   <  1:93787/116‑1 (MQ=255)                                                                                                                      cgcgACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTGCCa           >  2:228761/1‑139 (MQ=255)                                                                                                                      cgcgACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTGCCa           >  1:521320/1‑139 (MQ=255)                                                                                                                       gcgACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCTCCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTGCCa           <  1:228761/138‑1 (MQ=255)                                                                                                                         gACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTGCCATTc        <  2:553428/139‑1 (MQ=255)                                                                                                                          aCGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTGCCATTCg       <  1:75769/139‑1 (MQ=255)                                                                                                                                cgcTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTcc                                                            >  2:686427/1‑80 (MQ=255)                                                                                                                                cgcTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTcc                                                            <  1:686427/80‑1 (MQ=255)                                                                                                                                cgcTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTGCCATTCGAGAGt  >  2:499872/1‑138 (MQ=255)                                                                                                                                         |                                                                                                                                 CATCGGTTGGTGCTTTCGCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGATTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTGCCATTCGAGAGT  >  NZ_CP009273/668013‑668277

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑