Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,131,341	C→T	*356* (TAG→TAA)	yghQ ←	putative inner membrane polysaccharide flippase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,131,341	0	C	T	100.0%	142.1 / NA	45	*356* (TAG→TAA)	yghQ	putative inner membrane polysaccharide flippase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (19/26);  total (19/26)

TAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAGCGCCACCAGAATACCGATTCCGCCCGCCAGTAAACCGGACTTCAC  >  NC_000913/3131213‑3131466                                                                                                                                 |                                                                                                                              tAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGTTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGt                                                                                                                     >  2:199639/1‑139 (MQ=16)   aaTGGCGAATAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTACCCCGCTTATTCGCACCTTCCTTAAATCAGGTCa                                                                                                                   <  2:1455785/139‑1 (MQ=255)     tGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATa                                                                                                                 <  1:839827/139‑1 (MQ=25)               aCGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCgaga                                                                                                       <  1:1382197/139‑1 (MQ=255)                   tCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACt                                                                                                   <  1:225808/139‑1 (MQ=255)                    cTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACtt                                                                                                  <  1:462157/139‑1 (MQ=255)                      aaaTAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGTTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTaa                                                                                                <  1:199639/139‑1 (MQ=255)                        aTAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACg                                                                                              >  2:581213/1‑139 (MQ=255)                           ggCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCa                                                                                           <  1:315499/139‑1 (MQ=255)                            gCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACg                                                                                                               <  1:1079639/118‑1 (MQ=255)                            gCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACg                                                                                                               >  2:1079639/1‑118 (MQ=255)                             cTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCaaa                                                                                         <  2:707719/139‑1 (MQ=255)                               gATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAaca                                                                                       >  1:1109691/1‑139 (MQ=255)                                aTTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAacac                                                                                      >  2:1431739/1‑139 (MQ=255)                                 ttCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACAcc                                                                                     >  1:711613/1‑139 (MQ=255)                                      ggCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGa                                                                                >  1:1077741/1‑139 (MQ=255)                                                    aaaaaaTCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATa                                                                                                                 >  1:1314430/1‑92 (MQ=255)                                                    aaaaaaTCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATa                                                                                                                 <  2:1314430/92‑1 (MQ=255)                                                      aaaaTCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGTcg                                                                <  2:1077741/139‑1 (MQ=255)                                                                   aCATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAaca                                                                                       >  1:732183/1‑103 (MQ=255)                                                                   aCATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAaca                                                                                       <  2:732183/103‑1 (MQ=255)                                                                             atgaaatgaCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACtt                                                                                                  <  1:1235399/82‑1 (MQ=255)                                                                             atgaaatgaCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACtt                                                                                                  >  2:1235399/1‑82 (MQ=255)                                                                             atgaaatgaCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAGCGccac                                         <  1:581213/139‑1 (MQ=255)                                                                             atgaaatgaCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAGCGccac                                         <  2:711613/139‑1 (MQ=255)                                                                              tgaaatgaCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAg                                               >  1:710870/1‑132 (MQ=255)                                                                              tgaaatgaCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAg                                               <  2:710870/132‑1 (MQ=255)                                                                                     aCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACg                                                                                                               >  1:821525/1‑61 (MQ=255)                                                                                     aCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACg                                                                                                               <  2:821525/61‑1 (MQ=255)                                                                                         aGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAGCGCCACCAGAATACCGAt                             >  2:788786/1‑139 (MQ=255)                                                                                             aGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAGCGCCACCAGAATACCGATTccg                         <  1:1431739/139‑1 (MQ=255)                                                                                                cGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAGCGCCACCAGAATACCGATTccgccc                      >  2:1267068/1‑139 (MQ=255)                                                                                                cGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAGCGCCACCAGAATACCGATTccgccc                      <  2:1109691/139‑1 (MQ=255)                                                                                                   gaagaaTTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCaaa                                                                                         <  2:1015753/69‑1 (MQ=255)                                                                                                   gaagaaTTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCaaa                                                                                         >  1:1015753/1‑69 (MQ=255)                                                                                                   gaagaaTTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAGCGCCACCAGAATACCGATTccgcc                       <  1:1048979/135‑1 (MQ=255)                                                                                                   gaagaaTTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAGCGCCACCAGAATACCGATTccgcc                       >  2:1048979/1‑135 (MQ=255)                                                                                                    aagaaTTTCCCCGCTTATTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAGCGCCACCAGAATACCGATTCCGCCCGCCa                  <  1:1267068/139‑1 (MQ=255)                                                                                                                    aTTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCcg                                                                <  1:985564/77‑1 (MQ=255)                                                                                                                    aTTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCcg                                                                >  2:985564/1‑77 (MQ=255)                                                                                                                    aTTCGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAGCGCCACCATAATACCGATTCCGCCCGCCAGTAAACCGGACTTcac  <  1:788786/139‑1 (MQ=255)                                                                                                                       cGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCcg                                                                <  2:398002/74‑1 (MQ=255)                                                                                                                       cGCACCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCcg                                                                >  1:398002/1‑74 (MQ=255)                                                                                                                          aCCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAgcgc                                            >  2:140109/1‑91 (MQ=255)                                                                                                                          aCCTTCCTTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAgcgc                                            <  1:140109/91‑1 (MQ=255)                                                                                                                                 |                                                                                                                              TAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAAATCAGGTCATACGCTTCGAGATACTTAACGCCAAACACCAGCGAAATGAGCGGCTTGCCGACGATCAACACCGCGAGCGCCACCAGAATACCGATTCCGCCCGCCAGTAAACCGGACTTCAC  >  NC_000913/3131213‑3131466

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑