Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	3,543,436	T→C	intergenic (‑7/+3)	malQ ← / ← malP	4‑alpha‑glucanotransferase/maltodextrin phosphorylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	3,543,436	0	T	C	100.0%	199.2 / NA	53	intergenic (‑7/+3)	malQ/malP	4‑alpha‑glucanotransferase/maltodextrin phosphorylase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (27/26);  total (27/26)

TTGATGCATCGCGTCAAGCAAACGCCGTTTGGTTTCGGCGCTAATCGACTGCGGTTTACCGTGGGCATTGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTTCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCCGCGCGAGTCCAGGCCTCCTGGTCGCGGTACAGCACATCCACC  >  NZ_CP009273/3543301‑3543571                                                                                                                                        |                                                                                                                                        ttGATGCATCGCGTCAAGCAAACGCCGTTTGGTTTCGGCGCTAATCGACTGCGGTTTACCGTGGGCATTGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCt                                                                                                                                      <  1:117322/139‑1 (MQ=255)    aTGCATCGCGTCAAGCAAACGCCGTTTGGTTTCGGCGCTAATCGACTGCGGTTTACCGTGGGCATTGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAg                                                                                                                                   >  2:283627/1‑139 (MQ=255)     tGCATCGCGTCAAGCAAACGCCGTTTGGTTTCGGCGCTAATCGACTGCGGTTTACCGTGGGCATTGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGc                                                                                                                                  >  2:478000/1‑139 (MQ=255)       cATCGCGTCAAGCAAACGCCGTTTGGTTTCGGCGCTAATCGACTGCGGTTTACCGTGGGCATTGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGt                                                                                                                                >  1:454990/1‑139 (MQ=255)         tCGCGTCAAGCAAACGCCGTTTGGTTTCGGCGCTAATCGACTGCGGTTTACCGTGGGCATTGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGttt                                                                                                                              >  2:732807/1‑139 (MQ=255)         tCGCGTCAAGCAAACGCCGTTTGGTTTCGGCGCTAATCGACTGCGGTTTACCGTGGGCATTGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGttt                                                                                                                              >  2:687813/1‑139 (MQ=255)          cgcgTCAAGCAAACGCCGTTTGGTTTCGGCGCTAATCGACTGCGGTTTACCGTGGGCATTGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGtttt                                                                                                                             >  1:555527/1‑139 (MQ=255)            cgTCAAGCAAACGCCGTTTGGTTTCGGCGCTAATCGACTGCGGTTTACCGTGGGCATTGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTtgc                                                                                                                           <  2:292146/139‑1 (MQ=255)                          cGTTTGGTTTCGGCGCTAATCGACTGCGGTTTACCGTGGGCATTGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAg                                                                                                             <  1:340232/139‑1 (MQ=255)                                          tAATCGACTGCGGTTTACCGTGGGCATTGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGaa                                                                                              >  2:717754/1‑138 (MQ=255)                                          tAATCGACTGCGGTTTACCGTGGGCATTGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGaa                                                                                              >  2:134011/1‑138 (MQ=255)                                               gACTGCGGTTTACCGTGGGCATTGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATagag                                                                                         <  1:183345/138‑1 (MQ=255)                                                              tGGGCATTGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACa                                                                         >  1:213482/1‑139 (MQ=255)                                                              tGGGCATTGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACa                                                                         >  2:257221/1‑139 (MQ=255)                                                              tGGGCATTGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACa                                                                         <  2:403049/139‑1 (MQ=255)                                                                ggCATTGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATa                                                                       >  1:73768/1‑139 (MQ=255)                                                                 gCATTGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATAc                                                                      <  1:637056/139‑1 (MQ=255)                                                                     tGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGaa                                                                                              <  2:327241/111‑1 (MQ=255)                                                                     tGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGaa                                                                                              >  1:327241/1‑111 (MQ=255)                                                                     tGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCg                                                                    >  2:142429/1‑137 (MQ=255)                                                                          tAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAgcggg                                                             <  2:454990/139‑1 (MQ=255)                                                                          tAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAgcggg                                                             <  1:142429/139‑1 (MQ=255)                                                                          tAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAgcggg                                                             <  1:613429/139‑1 (MQ=255)                                                                          tAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAgcggg                                                             <  2:761964/139‑1 (MQ=255)                                                                          tAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAgcggg                                                             <  2:507017/139‑1 (MQ=255)                                                                               ggggCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTa                                                        >  1:433951/1‑139 (MQ=255)                                                                                  gCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATa                                                                                                                 >  2:125779/1‑79 (MQ=255)                                                                                  gCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATa                                                                                                                 <  1:125779/79‑1 (MQ=255)                                                                                      aTCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGa                                                 >  2:837173/1‑139 (MQ=255)                                                                                      aTCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGa                                                 >  1:91409/1‑139 (MQ=255)                                                                                          ccgccgCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATcgc                                             <  1:609531/139‑1 (MQ=255)                                                                                           cgccgcCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATcgcc                                            >  2:451874/1‑139 (MQ=255)                                                                                              cgccAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCcgcg                                         <  1:283627/139‑1 (MQ=255)                                                                                              cgccAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCcgcg                                         <  1:687813/139‑1 (MQ=255)                                                                                               gccAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCcgcgc                                        <  2:359318/139‑1 (MQ=255)                                                                                                    cgcgGCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCCGCGCGAGTc                                   >  1:554473/1‑139 (MQ=255)                                                                                                        gCATTATCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCCGCGCGAGTCCAgg                               >  1:727986/1‑139 (MQ=255)                                                                                                              tCCAGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCCGCGCGAGTCCAGGcctcct                         <  2:213482/139‑1 (MQ=255)                                                                                                                 aGACGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCCGCGCGAGTCCAGGCCTCCTGGt                      <  2:91409/139‑1 (MQ=255)                                                                                                                   aCGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCCGCGCGAGTCCAGGCCTCCTGGTcg                    <  2:429198/139‑1 (MQ=255)                                                                                                                   aCGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCCGCGCGAGTCCAGGCCTCCTGGTcg                    >  2:21978/1‑139 (MQ=255)                                                                                                                   aCGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCCGCGCGAGTCCAGGCCTCCTGGTcg                    <  2:213476/139‑1 (MQ=255)                                                                                                                   aCGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCCGCGCGAGTCCAGGCCTCCTGGTcg                    <  1:494238/139‑1 (MQ=255)                                                                                                                   aCGTTTGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCCGCGCGAGTCCAGGCCTCCTGGTcg                    >  1:429198/1‑139 (MQ=255)                                                                                                                   aCGTTTGCTTTCCAGCGAGCTCCCGTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATGCCGCAGCGGGCGGTATTGAGGATCGCCGCGCGAGTCCAGGCCTCCTGGTcg                    <  2:520370/139‑1 (MQ=255)                                                                                                                        tGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAgcgggcg                                                           >  2:305522/1‑95 (MQ=255)                                                                                                                        tGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAgcgggcg                                                           <  1:305522/95‑1 (MQ=255)                                                                                                                        tGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCCGCGCGAGTCCAGGCCTCCTGGTCGCGGTa               >  1:385500/1‑139 (MQ=255)                                                                                                                        tGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCCGCGCGAGTCCAGGCCTCCTGGTCGCGGTa               >  2:186920/1‑139 (MQ=255)                                                                                                                        tGCTTTCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCCGCGCGAGTCCAGGCCTCCTGGTCGCGGTa               >  2:168500/1‑139 (MQ=255)                                                                                                                             tCCATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCCGCGCGAGTCCAGGCCTCCTGGTCGCGGTACAGca          >  2:111958/1‑139 (MQ=255)                                                                                                                               cATCGAGCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCCGCGCGAGTCCAGGCCTCCTGGTCGCGGTACAGcaca        <  1:732807/139‑1 (MQ=255)                                                                                                                                     gCTCCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCCGCGCGAGTCCAGGCCTCCTGGTCGCGGTACAGCACATCCAcc  <  1:111958/139‑1 (MQ=255)                                                                                                                                        |                                                                                                                                        TTGATGCATCGCGTCAAGCAAACGCCGTTTGGTTTCGGCGCTAATCGACTGCGGTTTACCGTGGGCATTGATGTAATTGGGGCTAATCCCCGCCGCCAGCGCGGCATTATCCAGACGTTTGCTTTCCATCGAGCTTCCTTAGCGTTTTGCCTGCCAGATACGAGCCTGATAATCGCGAATAGAGCGATCCGAGCTAAACATACCGCAGCGGGCGGTATTGAGGATCGCCGCGCGAGTCCAGGCCTCCTGGTCGCGGTACAGCACATCCACC  >  NZ_CP009273/3543301‑3543571

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑