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	40.5%	25.0 / 30.8	38	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 (13/9);  new base C (4/11);  total (18/20)
Fisher's exact test for biased strand distribution p-value = 9.24e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.95e-01
Rejected as consensus: Frequency below/above cutoff threshold.

TTGCGCAGTGCGGGCTGACGGTGGAGCAACTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGAATCAGGGCTGTACTATAACCGTCACCGGTACTACGATCCGTTGCAGGGGCG  >  NC_000913_3_bme_pgi/526649‑526940                                                                                                                                                |                                                                                                                                                     ctGCGCAGTGCGGGCTGACGGTGGAGCAACTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGcgcggg                                                                                                                                                 <  2:296437/148‑3 (MQ=255)   gcgcAGTGCGGGCTGACGGTGGAGCAACTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGa                                                                                                                                               <  1:336285/149‑1 (MQ=255)      cAGTGCGGGCCGACGGTGGAGCAACTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCAAACAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAgta                                                                                                                                            <  1:125703/149‑1 (MQ=11)        gTGCGGGCTGACGGTGGAGCAACTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTatg                                                                                                                                          >  1:384865/1‑149 (MQ=255)         tGCGGGCTGACGGTGGAGCAACTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTatga                                                                                                                                         <  1:2087/149‑1 (MQ=255)         ggCGGGCTGACGGTGGAGCAACCGGCCAGACAGGCGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTTCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTatga                                                                                                                                         <  1:422258/148‑1 (MQ=11)          gCGGGCTGACGGTGGAGCAACCGGCCAGACACGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACAACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTatgat                                                                                                                                        <  1:506595/149‑1 (MQ=11)              gCTGACGGTGGAGCAACTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAAt                                                                                                                                    <  1:533844/149‑1 (MQ=255)                tGACGGTGGAGCAACTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATgg                                                                                                                                  >  1:362509/1‑149 (MQ=255)                        gAGCAACGGGCCAGACAGGTGGACCCGGAATACACACCGGCGCGAAAAGCTAATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCa                                                                                                                          <  1:123107/149‑1 (MQ=255)                                 gccagccaGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGCCGGCAATACGGCGTGGCGCGGGGAGGATGATGAATGGGGGACACAGCTTAATga                                                                                                                 >  2:317868/1‑149 (MQ=11)                                 gCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATga                                                                                                                 <  1:386922/149‑1 (MQ=255)                                 gCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATga                                                                                                                 <  2:335731/149‑1 (MQ=255)                                  ccAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATgag                                                                                                                <  1:82375/149‑1 (MQ=255)                                   cAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGCGTATGATGAATGGGGCAAGCAGCTTAATgagg                                                                                                               >  1:52963/1‑149 (MQ=11)                                    aGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATgagga                                                                                                              <  2:54623/149‑1 (MQ=255)                                    aGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATgagga                                                                                                              <  2:384865/149‑1 (MQ=255)                                    aGACAGGTGGACGCGTAATTCACACCGGCGCGACGAGCTCTTCCTTGTCACTGCGACCTCCGGGTACTGCCGCTGGCGCTGATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATgagga                                                                                                              <  2:143456/149‑1 (MQ=11)                                     gACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGCCTGCCGCTGGCGCTTATCAGCGAAAACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATgaggag                                                                                                             >  1:120787/1‑149 (MQ=255)                                        aGGTGGAGCCGGAATCCACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGCGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATGAGGAGAAc                                                                                                          <  1:317868/149‑1 (MQ=255)                                             gAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGca                                                                                                     >  1:81207/1‑149 (MQ=255)                                                ccGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACAGGCTAAATGGGGAGAACCCGcatca                                                                                                  >  1:166078/1‑149 (MQ=255)                                                  ggAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGGGCGGGGAGTATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGcatcacc                                                                                                >  1:134422/1‑147 (MQ=255)                                                  ggAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCAtg                                                                                                >  1:465385/1‑149 (MQ=255)                                                    aatagccacGGGCGGGAAAAGTTCGTCTTTAGCACGTCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCAtgtg                                                                                              <  2:507565/143‑1 (MQ=14)                                                            gcgggtcgAAAAGCTCATCTTGATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGcc                                                                                      <  2:120787/143‑1 (MQ=255)                                                            ccGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGAAGGAAGTACGCCGTGGAGCGCGAAATAGAATGAATGGGGAAACCAGCTACAGGAGGAGAAACCGCATACAGTGTATCAgac                                                                                      >  2:497780/1‑147 (MQ=255)                                                                         cTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCa                                                                         >  1:116920/1‑149 (MQ=255)                                                                             tCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGCCGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGgc                                                                     >  1:153394/1‑149 (MQ=255)                                                                               tttATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAGTACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGgcag                                                                   >  2:535407/1‑149 (MQ=255)                                                                                          gACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCAGCAtgatga                                                        <  1:359011/149‑1 (MQ=255)                                                                                                         ccGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAAACCGAAGCATGTGTAACCGCTAAATCGTCTGCCAGGGCAGCAGCATGATGAGGAATCAGGGCTGTa                                         <  1:396724/149‑1 (MQ=17)                                                                                                                cgcTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGAATCAGGGCTGTACTATAAc                                  <  1:349041/149‑1 (MQ=255)                                                                                                                 gcTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCAGCAGGGTGAGGAATCAGGGCTGTAATATAAcc                                 >  2:359450/1‑149 (MQ=255)                                                                                                                      tCAGCGAAGACGGCAATACGGCGTGGCGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTTCGGTCTGCCAGGGCAGCAGCATGATGAGGAATCAGGGCTGTACTATACCCGTCAc                            >  1:123185/1‑149 (MQ=255)                                                                                                                         gCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGAATCAGGGCTGTACTATAACCGTCACCgg                         >  1:143875/1‑149 (MQ=255)                                                                                                                               aCGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGAATCAGGGCTGTACTATAACCATCACCGGtactac                   >  1:157871/1‑149 (MQ=255)                                                                                                                                 ggCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGAATCAGGGCTGTACTATAACCGTCACCGGTACTACGa                 <  2:362509/149‑1 (MQ=255)                                                                                                                                     aTACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCATCATGATGAGGAATCAGGGCTGTACTATAACCGTCACCGGTACTGCGATCCg             >  2:509000/1‑149 (MQ=255)                                                                                                                                                aGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGAATCAGGGCTGTACTATAACCGTCACCGGTACTACGATCCGTTGCAGGGGCg  <  2:465385/149‑1 (MQ=255)                                                                                                                                                |                                                                                                                                                     TTGCGCAGTGCGGGCTGACGGTGGAGCAACTGGCCAGACAGGTGGAGCCGGAATACACACCGGCGCGAAAAGCTCATCTTTATCACTGCGACCACCGGGGACTGCCGCTGGCGCTTATCAGCGAAGACGGCAATACGGCGTGGAGCGCGGAATATGATGAATGGGGCAACCAGCTTAATGAGGAGAACCCGCATCATGTGTATCAGCCGTACCGTCTGCCAGGGCAGCAGCATGATGAGGAATCAGGGCTGTACTATAACCGTCACCGGTACTACGATCCGTTGCAGGGGCG  >  NC_000913_3_bme_pgi/526649‑526940

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: ‑