Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP006881	3,724,849	A→T	intergenic (‑23/+17)	U712_19200 ← / ← U712_19205	SacPA operon antiterminator/Uncharacterized protein ywcI

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP006881	3,724,849	0	A	T	100.0%	188.8 / NA	54	intergenic (‑23/+17)	U712_19200/U712_19205	SacPA operon antiterminator/Uncharacterized protein ywcI
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (24/30);  total (24/30)

TGAGGTCATTTTTCTTTTTTTGAAAAGCGATTCCTGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAGTACTTTATAGATTTTCAAGAGGCTATCTCTCCCGCCAATTAGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCAGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTTATAAAGCGCGGCGGCTTTCGCTTTTT  >  CP006881/3724715‑3724978                                                                                                                                       |                                                                                                                                  tGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCtt                                                                                                                               >  5:25713/1‑139 (MQ=255) tGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCtt                                                                                                                               >  6:207469/1‑139 (MQ=255) tGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCtt                                                                                                                               <  3:285458/139‑1 (MQ=255) agagaTCAATTTTCTTTTTTTGAAAAGCGCATCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCtt                                                                                                                               <  8:95141/138‑1 (MQ=255)     atCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTg                                                                                                                            >  4:280666/2‑138 (MQ=255)        aTTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACt                                                                                                                         <  7:295859/138‑1 (MQ=255)        aTTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCATCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTTACTg                                                                                                                        >  8:102191/1‑139 (MQ=255)         tttttCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGGTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTgg                                                                                                                       <  7:231530/139‑1 (MQ=255)          ttttCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCTTCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTgg                                                                                                                       >  7:358233/1‑138 (MQ=255)          ttttCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCTTCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTgg                                                                                                                       >  7:362972/1‑138 (MQ=255)               tttttttGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGAttt                                                                                                                  >  7:178103/1‑138 (MQ=255)                 ttattGAACAGCGATACCCGGGCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTACAGCCGCATTGTTGGTTAATACTTTATAGATTTTCAAGAGGTTCTCTCTCCCGCCAATTTGCGTTTGACTGGGATTTTAc                                                                                                               <  6:184641/136‑1 (MQ=255)                          aGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTg                                                                                                      <  4:144775/139‑1 (MQ=255)                                 cccggTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGcc                                                                                                <  8:117375/135‑1 (MQ=255)                                 cccggTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGcc                                                                                                <  4:57617/135‑1 (MQ=255)                                 cccggTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGcc                                                                                                <  3:297693/135‑1 (MQ=255)                                 cccggTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGGTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGcc                                                                                                <  6:33816/135‑1 (MQ=255)                                           tCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGcc                                                                                                <  5:120078/128‑1 (MQ=255)                                           tCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGcc                                                                                                >  6:120078/1‑128 (MQ=255)                                           tCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATg                                                                                     <  3:73839/139‑1 (MQ=255)                                           tCAAGATTTTTTCCTGATCATCCTCTTTTTTTAAAGCCGCTTTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTGTCCCGCAAATTTGCTTTTGACTGGGATTTTACCTCGTTTTGACCGCCATGTAAAGATg                                                                                     <  1:133474/139‑1 (MQ=255)                                                aTTTTTTCCTGCTCATCCTCTTTTATTCAAGCCGCATTGTGGTTTAATACTTTATAGATTTTCAAGAGGTGATCTCTCCCGCCAATTTGCTGTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGc                                                                                <  7:44918/139‑1 (MQ=255)                                                    tttCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGAATTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGcccg                                                                             <  1:145587/138‑3 (MQ=255)                                                      tCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGct                                                                           <  6:40080/138‑1 (MQ=255)                                                        cTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGctctc                                                                        <  8:246737/139‑1 (MQ=255)                                                           atcatcCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGctctct                                                                       <  3:280666/137‑1 (MQ=255)                                                           atcatcCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCtctctc                                                                      <  8:178103/138‑1 (MQ=255)                                                               tcCTCTTTTATTAAAGCCGCAATGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTAACGCCAATTTGATTTTGACTGGGATTTTACATCCTTATGACAGCCATCTAAAGATCCCGGCCCGCACTCTcctcct                                                                 >  3:155295/1‑139 (MQ=255)                                                                       tattaATGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGa                                                          <  4:199894/138‑1 (MQ=255)                                                                       tattaAAGCCGCATTGTTTTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGa                                                          <  7:102191/138‑1 (MQ=255)                                                                       tattaAAGCCGCATTGTTGTTTAATACTTTATATATTTTCAAGATTTTATCTATCCCGCGAATTTTCTTTTGACTGGGATTTTAGCTCCTTTTGACCGCCATGTAAATATGCGGGCCCGCTCTCTCATGCTTTGGCGa                                                          <  4:155295/138‑1 (MQ=255)                                                                       tattaAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGa                                                          <  6:25713/138‑1 (MQ=255)                                                                              gCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGa                                                          <  8:307947/131‑1 (MQ=255)                                                                              gCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGa                                                          >  7:307947/1‑131 (MQ=255)                                                                                  cATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGc                                              >  8:145799/1‑139 (MQ=255)                                                                                  cATTGTTGCTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGc                                              >  3:122029/1‑139 (MQ=255)                                                                                            taatACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACAt                                    >  7:243586/4‑139 (MQ=255)                                                                                               tACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACAtctt                                 >  5:148631/1‑139 (MQ=255)                                                                                                   ttATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCCTTTGACCGCCATGTAAAGATg                                                                                     >  7:63238/1‑83 (MQ=255)                                                                                                   ttATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCCTTTGACCGCCATGTAAAGATg                                                                                     <  8:63238/83‑1 (MQ=255)                                                                                                    tataGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGCTTCCTTGAAGGCTTGCAAACATCTTCttt                             >  3:43982/1‑138 (MQ=255)                                                                                                    tataGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCtttt                            >  1:107973/1‑139 (MQ=255)                                                                                                    tataGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCGCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCtttt                            >  2:55866/1‑139 (MQ=255)                                                                                                           tttCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTTATAAAgc                     >  3:96090/1‑139 (MQ=255)                                                                                                               aaGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTTATAAAGcgcg                  <  7:110502/138‑1 (MQ=255)                                                                                                                     ttATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTTATAAAGCGCGGCGGCtt           <  5:207469/138‑1 (MQ=255)                                                                                                                       aTCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCg                                                                                                  <  7:295867/50‑1 (MQ=255)                                                                                                                       aTCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCg                                                                                                  >  8:295867/1‑50 (MQ=255)                                                                                                                              ccGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCg                                                                                                  <  6:50525/43‑1 (MQ=255)                                                                                                                              ccGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCg                                                                                                  >  5:50525/1‑43 (MQ=255)                                                                                                                              ccGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGc                                              >  7:86280/1‑95 (MQ=255)                                                                                                                              ccGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGc                                              <  8:86280/95‑1 (MQ=255)                                                                                                                              ccGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTTATAAAGCGCGGCGGCTTTCGCtttct  >  7:6704/1‑137 (MQ=255)                                                                                                                              ccGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTTATAAAGCGCGGCGGCTTTCGCtttct  >  7:217636/1‑137 (MQ=255)                                                                                                                                       |                                                                                                                                  TGAGGTCATTTTTCTTTTTTTGAAAAGCGATTCCTGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAGTACTTTATAGATTTTCAAGAGGCTATCTCTCCCGCCAATTAGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCAGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTTATAAAGCGCGGCGGCTTTCGCTTTTT  >  CP006881/3724715‑3724978

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑