Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,443,277	0	A	C	45.0%	46.3 / 23.9	40	V274G (GTA→GGA)	secY	preprotein translocase membrane subunit
Reads supporting (aligned to +/- strand):  ref base A (21/1);  new base C (0/18);  total (21/19)
Fisher's exact test for biased strand distribution p-value = 1.68e-10
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CGCATAGAGTAACACATAAAGCGGTTGCCCAGGCTGCAAATACAGCGAAATTG‑TTGTCAGCCAGTTCCAA‑CCAGT‑ACCGCCCCCGAACCATGACGCGATGGTCGCCGGGAAC‑AGAATAATACTGGAAGCGAAGATT‑GC‑CG‑GGATTACCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTGACGTTTCGCGTAGTTTACCACAATGCGGCGTTGACCACGCTCAACAAATACAACAAAGAACGTCACTGCAAATACTAATACT  >  NC_000913/3443132‑3443426                                                                                                                                                         |                                                                                                                                                      cGCATAGAGTAACACATAAAGCGGTGGCCCAGGCTGCAAATAAAGCGAAATTG‑TCGTCAGCCAGTGCCAA‑CCAGT‑ACCGCGACCGAACCATGACGCGATGGTCGCCGGGAAC‑AGAATAATACTGGAAGCGAAGATT‑GC‑CG‑GTATTAcagc                                                                                                                                                   >  1:499318/1‑147 (MQ=255)     tAGAGTAACACATAAAGCGGTTGCCCAGGCTGCAAATACAGCGAAATTG‑TTGTCAGCCAGTTCCAA‑CCAGT‑ACCGCCCCCGAACCATGACGCGATGGTCGCCGGGAAC‑AGAATAATACTGGAAGCGAAGATT‑GC‑CG‑GGATTACCCCCGcc                                                                                                                                               >  2:240462/1‑150 (MQ=255)       gagTAACACATAAAGCGGTTGCCCAGGCTGCAAATACAGCGAAATTG‑TTGTCAGCCAGTTCCAA‑CCAGT‑ACCGCCCCCGAACCATGACGCGATGGTCGCCGGGAAC‑AGAATAATACTGGAAGCGAAGATT‑GC‑CG‑GGATTACCCCCGCCat                                                                                                                                             >  2:667958/1‑150 (MQ=255)            acacATAAAGCGGTTGCCCAGGCTGCAAATACAGCGAAATTG‑TTGTCAGCCAGTTCCAA‑CCAGT‑ACCGCCCCCGAACCATGACGCGATGGTCGCCGGGAAC‑AGAATAATACTGGAAGCGAAGATT‑GC‑CG‑GGATTACCCCCGCCATATTCAc                                                                                                                                       >  2:838286/1‑151 (MQ=255)              acaTAAAGCGGTTGCCCAGGCTGCAAATACAGCGAAATTG‑TTGTCAGCCAGTTCCAA‑CCAGT‑ACCGCCCCCGAACCATGACGCGATGGTCGCCGGGAAC‑AGAATAATACTGGAAGCGAAGATT‑GC‑CG‑GGATTACCCCCGCCATATTCACtt                                                                                                                                     >  2:245572/1‑151 (MQ=255)                     gCGGTTGCCCAGGCTGCAAATACAGCGAAATTG‑TTGTCAGCCAGTTCCAA‑CCAGT‑ACCGCCCCCGAACCATGACGCGATGGTCGCCGGGAAC‑AGAATAATACTGGAAGCGAAGATT‑GC‑CG‑GGATTACCCCCGCCATATTCACTTTCAGCgg                                                                                                                              >  2:596425/1‑151 (MQ=255)                       gttggCCCAGGCTAAAAATACGCAGATTTTG‑TTCCCCGCCAAACCCAA‑CCAGT‑CCCCCCCCCAAACCAGGACGCGGTGGCCCCCGGAACA‑AAAAAAATACGAGAGGCCAA‑TTT‑GC‑CGAGGCTCCCCCCCGCCATATTCACTTTCAGCGGt                                                                                                                             <  1:735503/146‑1 (MQ=255)                           ccccagcccaaaaaaACAGCAAATTTG‑TTGCAAGCCAGTCCCAA‑CCAGC‑CCCCCCCCCGAACCAGGCCGCGATGGTCCCCGGAAAC‑AAAATAATACTGGAAGAGAAGATG‑GC‑GG‑GGATTCCCCCCGCCATATTCACTTTCAGCGGTAAAtg                                                                                                                        <  1:389323/140‑1 (MQ=255)                            cccAGGCTGCAAATACAGCGAAATTG‑TTGTCAGCCAGTTCCAA‑CCAGT‑ACCGCCCCCGAACCATGACGCGATGGTCGCCGGGAAC‑AGAATAATACTGGAAGCGAAGATT‑GC‑CG‑GGATTACCCCCGCCATATTCACTTTCAGCGGTAAAtg                                                                                                                        >  1:736407/1‑150 (MQ=255)                                ggCTGAAAATACAGCAAATTTT‑TTGTCACCCAGTTCCAC‑CCAGC‑CCCCCCCCCAAACCAGGACGCGATGGCCGCCGGAAAC‑AAAATAATACTGAAAGCAAAGATT‑GC‑GG‑GGATTCCCCCCGCCATATTCACTTTCAGCGGTAAAtgtgtg                                                                                                                    <  2:335760/150‑1 (MQ=255)                                  cTGCAAATACAGCGAAATTG‑TTGTCAGCCAGTTCCAA‑CCAGT‑ACCGCCCCCGAACCATGACGCGATGGTCGCCGGGAAC‑AGAATAATACTGGAAGCGAAGATT‑GC‑CG‑GGATTACCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGct                                                                                                                  >  1:777692/1‑150 (MQ=255)                                        aaaCAGCAAATTTT‑TTGCCACCCAGTCCCAA‑CCAGT‑ACCGCCCCCAACCAATGCCGGGTTGGCCGCGGGAAAA‑AAAAAAATCCGGGAGGCGAAGATG‑GC‑GG‑GTATTCCCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTgca                                                                                                           <  2:690075/149‑1 (MQ=255)                                               aaaattttttgtAAGCCTGTTCCAA‑CCAGT‑ACCCCCCCCGAACCATGACGCGATGTTCGCCGGAAAC‑AGAAAAATACTGGAGGCAAAGTTT‑GC‑GG‑GAATTCCCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATa                                                                                                      <  2:532773/142‑1 (MQ=255)                                                agtttg‑ttgTCACCCA‑TTCCAA‑ACAATGCCCCCCCCCGAACCATGACGCGATGGTCTCGGGAAAT‑AAAAAAATATTGAAGGCGAAGTTT‑GC‑CG‑GAATTCCCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGac                                                                                                   <  2:856136/148‑1 (MQ=255)                                                aatttg‑ttgCCGCCCAGTTCCAA‑CCACT‑CCCCCCCCTGAACCTGGCCGCGGTTCACGCCGGAAAC‑AAATTAATCCTGGAAGCAAAATTT‑GC‑GG‑GGTTTCCCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAg                                                                                                     <  2:196380/146‑1 (MQ=255)                                                aatttg‑tggTCAGCCATTCCCAA‑CCAGT‑CCCCCCCCCGAACCATGACGCGATGGCCGCGGGAAAA‑AAAAAAATACTGGAAGAGAAGATG‑GC‑GG‑GGATTCCCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGac                                                                                                   <  2:463457/148‑1 (MQ=255)                                                aaaTTG‑TTGTCAGCCAGTTCCAA‑CCAGT‑ACCGCCCCCGAACCATGACGCGATGGTCGCCGGGAAC‑AGAATAATACTGGAAGCGAAGATT‑GC‑CG‑GGATTACCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGac                                                                                                   >  2:690020/1‑151 (MQ=255)                                                 aattttttgcccgCCATTCCCAA‑CCGCT‑CCCGCCCCCGAACCATGAGGCGAGGGCCGCGGGAAAA‑AAAAAAATAGGGGAAGCAAGGATG‑GC‑GG‑GGTTTCCCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTgcagc                                                                                                         <  2:227701/133‑1 (MQ=255)                                                 aaTTGTTTGACAGCCAGTTCCAA‑CCAGT‑CCCCCCCCCAAACCATGACGGGAGGGTCGCGGGAAAA‑AAAAAAATACTGAAGGAGAAGATT‑GC‑GG‑GGATCCCCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATa                                                                                                      <  2:583429/148‑1 (MQ=255)                                                  aTTG‑TTGTCAGCCAGTTCCAA‑CCAGT‑ACCGCCCCCGAACCATGACGCGATGGTCGCCGGGAAC‑AGAATAATACTGGAAGCGAAGATT‑GC‑CG‑GGATTACCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGacac                                                                                                 >  1:543597/1‑151 (MQ=255)                                                        tgtCGGCCAAGTCCAACCCGGT‑CCCGCCCCCAACCCAGGAGGGGGGGGCCGCGGGAAAG‑AAAATAATAC‑GGGAGGGAAGATTGGC‑GG‑GGTTTCCCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACacgac                                                                                              <  1:711600/150‑1 (MQ=255)                                                          tCAGCCAGTTCCAA‑CCAGT‑ACCGCCCCCGAACCATGACGCGATGGTCGCCGGGAAC‑AGAATAATACTGGAAGCGAAGATT‑GC‑CG‑GGATTACCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGAcc                                                                                          >  2:512172/1‑151 (MQ=255)                                                                aGTTCCAA‑CCAGT‑ACCGCCCCCGAACCATGACGCGATGGTCGCCGGGAAC‑AGAATAATACTGGAAGCGAAGATT‑GC‑CG‑GGATTACCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTg                                                                                    >  2:701944/1‑151 (MQ=255)                                                                  tcccAA‑CCAGC‑CCCCCCCCCAAACCATGGCGCGATGGTCGCCGGAAAC‑AAAAAAATACGGAAAGCGAATATT‑GC‑CG‑GAATTCCCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCCCTGTGCAGCATAGACACGACGACCTTGCTGa                                                                                   <  2:648249/148‑1 (MQ=255)                                                                                ccGCCCCCGAACAATGGCGGGATGGGCGCGGGAAAC‑AAAATAATCCTGGAAGCTAAGTTG‑GC‑GG‑GGATCACCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTGACGttt                                                                              <  1:861611/143‑1 (MQ=255)                                                                                  gCCCCCGAACCATGACGCGATGGTCGCCGGGAAC‑AGAATAATACTGGAAGCGAAGATT‑GC‑CG‑GGATTACCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTGACGTTTCGCGTAGttt                                                                    >  2:545948/1‑151 (MQ=255)                                                                                            cATGACGGGATGGTCGCCGGGAAA‑AAAATAATCCTGGAAGAAAAGATT‑GC‑CG‑GGTTTCCCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTGACGTTTCGCGTAGTTTACCACAAt                                                            <  2:831563/149‑1 (MQ=255)                                                                                             aTGACGCGATGGTCGCCGGGAAC‑AGAATAATACTGGAAGCGAAGATT‑GC‑CG‑GGATTACCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTGACGTTTCGCGTAGTTTACCACAATgcg                                                         >  1:820064/1‑151 (MQ=255)                                                                                                 cgcgATGGTCGCGGGGAAA‑AGAAAAATACTGGAAGCGAAGATT‑GC‑CG‑GAATCCCCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTGACGTTTCGCGTAGTTTACCACAATgcggc                                                       <  2:455957/149‑1 (MQ=255)                                                                                                    gATGGCCG‑CGGGAACAAAAAAAATACGGGAAGCAAATGTT‑GC‑GG‑GTATACCCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTGACGTTTCGCGTAGTTTACCACAATGCGGCGTTGa                                                  <  1:866215/151‑1 (MQ=255)                                                                                                       gcgcacggaaaaC‑AAAATAATGGTGGAAGC‑AAGTAT‑GCTCG‑GGTTTCCCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTGACGTTTCGCGTAGTTTACCACAATGCGGCGtt                                                    <  1:550444/136‑1 (MQ=255)                                                                                                          cGCCGGGAAC‑AGAATAATACTGGAAGCGAAGATT‑GC‑CG‑GGATTACCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTGACGTTTCGCGTAGTTTACCACAATGCGGCGTTGACCACGc                                            >  1:794351/1‑151 (MQ=255)                                                                                                            ccGGGAAC‑AGAATAATACTGGAAGCGAAGATT‑GC‑CG‑GGATTACCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTGACGTTTCGCGTAGTTTACCACAATGCGGCGTTGACCACGCTc                                          >  2:278373/1‑151 (MQ=255)                                                                                                            ccGGGAAC‑AGAATAATACTGGAAGCGAAGATT‑GC‑CG‑GGATTACCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTGACGTTTCGCGTAGTTTACCACAATGCGGCGTTGACCACGCTc                                          >  1:450247/1‑151 (MQ=255)                                                                                                                     aaaataatACGGGAAGCGAAGATT‑GC‑GG‑GGATTCCCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTGACGTTTCGCGTAGTTTACCACAATGCGGCGTTGACCACGCTCAACAAATa                                  <  2:384336/149‑1 (MQ=255)                                                                                                                                ggAAGCGAAGTTT‑GC‑CG‑GAATACCCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTGACGTTTCGCGTAGTTTACCACAATGCGGCGTTGACCACGCTCAACAAATacaaca                             <  2:718413/145‑1 (MQ=255)                                                                                                                                        aGATT‑GC‑CG‑GGATTACCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTGACGTTTCGCGTAGTTTACCACAATGCGGCGTTGACCACGCTCAACAAATACAACAAAGAACGTCACTGc               >  2:587584/1‑151 (MQ=255)                                                                                                                                                 cG‑GGATTACCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTGACGTTTCGCGTAGTTTACCACAATGCGGCGTTGACCACGCTCAACAAATACAACAAAGAACGTCACTGCAaatact        >  1:135845/1‑151 (MQ=255)                                                                                                                                                    ggATTACCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTGACGTTTCGCGTAGTTTACCACAATGCGGCGTTGACCACGCTCAACAAATACAACAAAGAACGTCACTGCAaatacta       >  1:326565/1‑150 (MQ=255)                                                                                                                                                      atcaCCGCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTGACGTTTCGCGTAGTTTACCACAATGCGGCGTTGACCACGCTCAACAAATACAACAAAGAACGTCACTGCAaatact        <  2:576229/144‑1 (MQ=255)                                                                                                                                                        tACCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTGACGTTTCGCGTAGTTTACCACAATGCGGCGTTGACCACGCTCAACAAATACAACAAAGAACGTCACTGCAaatactaatact  >  2:668798/1‑151 (MQ=255)                                                                                                                                                         |                                                                                                                                                      CGCATAGAGTAACACATAAAGCGGTTGCCCAGGCTGCAAATACAGCGAAATTG‑TTGTCAGCCAGTTCCAA‑CCAGT‑ACCGCCCCCGAACCATGACGCGATGGTCGCCGGGAAC‑AGAATAATACTGGAAGCGAAGATT‑GC‑CG‑GGATTACCCCCGCCATATTCACTTTCAGCGGTAAATGTGTGCTCTGTGCAGCATAGACACGACGACCTTGCTGACGTTTCGCGTAGTTTACCACAATGCGGCGTTGACCACGCTCAACAAATACAACAAAGAACGTCACTGCAAATACTAATACT  >  NC_000913/3443132‑3443426

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑