Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_bme_pgi	526,792	0	A	C	38.5%	29.1 / 53.4	53	S1178R (AGC→CGC)	rhsD	Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor
Reads supporting (aligned to +/- strand):  ref base A (14/18);  new base C (7/13);  total (22/31)
Fisher's exact test for biased strand distribution p-value = 5.75e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.48e-03
Rejected as consensus: Frequency below/above cutoff threshold.

TTGCGCAGTGCGGGCTGACGGTGGAGCAACTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGAATCAGGGCTGTACTATAACCGTCACCGGTACTACGATCCGTTGCAGGGGC  >  NC_000913_3_bme_pgi/526649‑526939                                                                                                                                                |                                                                                                                                                    ttGCGCAGTGCGGGCTGACGGTGGAGCAACTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGcgcggg                                                                                                                                                <  1:303226/149‑3 (MQ=255) ttGCGCAGGGCGGGCTGACGGTGGAGCAACTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGcgcggg                                                                                                                                                <  1:438067/149‑3 (MQ=255)   gcgcAGTGCGGGCTGACGGTGGAGCAACGGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGTAGACGGCAATACGGCGTGGCGCGGGGa                                                                                                                                              <  2:536739/149‑1 (MQ=255)         tGCGGGCTGACGGTGGAGCAACTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATatga                                                                                                                                        <  1:285602/149‑1 (MQ=255)             ggCTGACGGGGGAGCAACTGGCCAGACAGGTGGAGCCGGCATACACAGCGGCGCGAAAAGCTCATCTTTATCACTGCGATCACCGGGGACTGCCGCTGGCGCTTACCAGCGAAGACGGCAATAGGGCGTGGCGCGGGGAGTATGATGaa                                                                                                                                    <  1:414731/149‑1 (MQ=11)                tGACGGGGGACCAACTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATgg                                                                                                                                 <  1:172656/149‑1 (MQ=11)                 gaccggggAGCAACTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATggg                                                                                                                                <  1:139803/143‑1 (MQ=11)                 gACCGTGGAGCAACTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACAGCCGCCGCCGCTTATCATCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATggg                                                                                                                                <  2:500010/149‑1 (MQ=11)                             aCTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTTATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATCGGGCGTGGCGCGGGGAGTGTGATGAATGGGGAAACCAGATTa                                                                                                                    >  1:20717/1‑149 (MQ=11)                              cTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTatgat                                                                                                                                       <  2:277183/129‑1 (MQ=255)                              cTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTatgat                                                                                                                                       >  1:277183/1‑129 (MQ=255)                              cTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAAt                                                                                                                                   >  2:168880/1‑133 (MQ=255)                              cTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAAt                                                                                                                                   <  1:168880/133‑1 (MQ=255)                               tGGCCAGCCAGGTGGCGCCGACTTACACAGCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAAt                                                                                                                  <  1:11029/149‑1 (MQ=11)                                 gCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAACGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATga                                                                                                                <  1:17696/149‑1 (MQ=255)                                 gCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATga                                                                                                                <  2:44292/149‑1 (MQ=255)                                  ccAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCGCATCTTTAGCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATgag                                                                                                               <  2:9577/149‑1 (MQ=255)                                   cAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATgggg                                                                                                              >  1:20284/1‑149 (MQ=255)                                       cgggTGGGGCGGGAAGACACACGGGCGCGAAAAGCTCATCTTTATCACTGCGAGCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATGAGGAGaa                                                                                                          <  2:151598/147‑1 (MQ=11)                                        aGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAAc                                                                                                         >  1:218538/1‑149 (MQ=255)                                          gTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAGTATGATGAACGGGGCCACCAGCTTAATGAGGAGAAccc                                                                                                       >  1:365288/1‑149 (MQ=255)                                               gCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGcatc                                                                                                  >  1:254400/1‑149 (MQ=255)                                               gCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGCGGACTATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGcacc                                                                                                  >  2:20364/1‑147 (MQ=255)                                                 cGGAATACACACTGGCGCGAAATGCTCATCTTTATCACTGCGGCCACCGGGGACTGCCGCTGGCGCTTATCAGGGAAGACGGCAAGACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGcatcac                                                                                                <  2:325691/149‑2 (MQ=11)                                                 cGGAATACACACCGGCGCGAAAAGCGCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGcatcat                                                                                                <  2:268787/149‑1 (MQ=255)                                                  ggAATACACACCGGCGCGAAAAGCGCATCTTTATCACTGCGACCACCGGGGACTGCCGCGGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGGGCGGAGAGTATGATGAATGGGGCAACCAGCTTAATTAGGAGAACCCgactcccc                                                                                               >  1:159467/1‑142 (MQ=11)                                                       acacacCGGCGCGAAAAGCTCAGCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGcatcacctgcac                                                                                          <  1:162985/149‑8 (MQ=11)                                                            ccGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGGAACCGCATCATGTGTATCAGcc                                                                                     >  2:492395/1‑149 (MQ=255)                                                            ccGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGcc                                                                                     <  2:321576/149‑1 (MQ=255)                                                                 gcgAAAAGCTCATCTTTATCACTGCTACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACTGCAATACGGCGTGGAGACCGGAATATGATGAATGGGGGAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTAcc                                                                                <  1:492395/149‑1 (MQ=18)                                                                   gAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATAATGTGTATCAGCCGTACCGt                                                                              >  1:239778/1‑149 (MQ=255)                                                                     aaaGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCt                                                                            <  2:58455/149‑1 (MQ=255)                                                                        gCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAAc                                                                                                                           >  2:403576/1‑99 (MQ=11)                                                                        gCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAAc                                                                                                                           <  1:403576/99‑1 (MQ=11)                                                                         cTCATCTTTATCACTGCGACCACCGGGATGTGCGGGTGCAGCCTCTCAGACCAGACCGCAATACGGCGTGGAGCTCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCa                                                                        <  1:261153/149‑1 (MQ=17)                                                                          tCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAg                                                                       >  1:226552/1‑149 (MQ=255)                                                                            atcgtgaTCACTGCGACCACCGCGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAAGGGGGCAACCAGCTTAATGAGGAGAACCCGAATCATGTGTATCAGCCGTACCGTCTGCCAggg                                                                     <  2:392053/143‑1 (MQ=17)                                                                            aTCTTTATCACTGCGACCACCGGGGACTGCCGCCGGCGCTTATCCGCGAAGACGGCAATACGACGCGGCGCGGGGAGAATGAGGAACGGGCCAACCAGCTTAATCAGGAGAACCCACATCAACTGCACCACCCGTACCGCCTGCCAtgg                                                                     >  2:442800/1‑149 (MQ=255)                                                                            aTCTTTACCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAggg                                                                     <  2:84028/149‑1 (MQ=255)                                                                              cTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCAGGTGTGTCAGCCGTACCGGCTGCCCGGgca                                                                   >  2:245044/1‑149 (MQ=255)                                                                                  aTCACTGCGACCACGGGGGACTGCAGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGgcagcag                                                               >  1:472017/1‑149 (MQ=255)                                                                                  aTCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAAACGGCAATACGGCGGGGAGCTCGGAATATGATGAATGGGGCAACCAGCTTAAGGAGGAGAACCCGCACCATGTGTATCAGCCGTACAGTCTCCCAGGgcagcag                                                               >  2:116148/1‑149 (MQ=17)                                                                                  aTCACCGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGgcagcag                                                               <  1:233866/149‑1 (MQ=255)                                                                                   tCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATAATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGgcagcagc                                                              >  1:256674/1‑149 (MQ=255)                                                                                              cccGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAACACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGaa                                                   <  1:232462/148‑1 (MQ=255)                                                                                               ccGGGGACTGCCGCTGGCGCTCATCAGCGAAGACGGCAATACGGCGGGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGATAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGAAt                                                  <  1:108233/149‑1 (MQ=255)                                                                                                       tGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCGGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGAATCAGGGCTg                                          >  1:159463/1‑149 (MQ=255)                                                                                                         ccGCTGGCGCTGAGCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGGACCGTCTGCCAGGGCAGCAGCATGATGAGGAATCAGGGCTGTa                                        <  2:14088/149‑1 (MQ=255)                                                                                                                 gcTTATCCGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGAATCAGGGCTGTACTATAAcc                                <  1:500233/149‑1 (MQ=255)                                                                                                                 gcTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGAATCAGGGCTGTACTATAAcc                                <  1:377448/149‑1 (MQ=255)                                                                                                                   ttATCAGCGAAGACGGCAATACGGGGTGGAGGGCGGAATATGATGAATGGGACAACCAGCTTAATGAGGAGAATCCGCATCATCTGTATCAGCCGTACCGTCTGCCTAGGCAGGAGTATGATGAGGAATCAGGGTTGTACTATAACCGt                              <  2:517782/149‑1 (MQ=17)                                                                                                                         gCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGAATCAGGGCTGTACTATACCGGTCACCgg                        >  2:350538/1‑149 (MQ=255)                                                                                                                           gAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGAATCAGGGCTGTACTATAACCGTCACCggga                      >  2:356354/1‑147 (MQ=255)                                                                                                                                 ggCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGCATCAGGGCTGTACTATCACCACCACCGGcactacaa                >  2:292015/1‑147 (MQ=17)                                                                                                                                               gAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGAATCAGGGCTGTACTATAACCGTCACCGGTACTACGATCCGTTGCAGGGGc  <  1:116148/149‑1 (MQ=255)                                                                                                                                                |                                                                                                                                                    TTGCGCAGTGCGGGCTGACGGTGGAGCAACTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGAATCAGGGCTGTACTATAACCGTCACCGGTACTACGATCCGTTGCAGGGGC  >  NC_000913_3_bme_pgi/526649‑526939

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑