Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,336,901	0	T	A	51.7%	18.3 / 42.6	30	Y44F (TAT→TTT)	adiC	arginine:agmatine antiporter
Reads supporting (aligned to +/- strand):  ref base T (11/3);  new base A (0/15);  total (11/19)
Fisher's exact test for biased strand distribution p-value = 1.05e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.39e-05

AGAGGACGTTGGTTTGATAACCGAGAAACGGGCCAAAGCAGCGGCGGGCGTAAGCGTAAGAACCACCAGGACTTGGGTCGAGGAACGACATTTTGGCGTATACCATCGAGAGCCCCAGTGCACCGATAATCGTCACCAACCATCCATAAATGGCAA‑TCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAGGGTGACGGGGATTAAGCCCACTTTGTGAGCATCAGCATCCGAAGACATAATTAAACTC  >  NC_000913/4336755‑4337041                                                                                                                                                   |                                                                                                                                              agagGACGTTGGTTTGATAACCGAGAAACGGGCCAAAGCAGCGGCGGGCGTAAGCGTAAGAACCACCAGGACTTGGGTCGAGGAACGACATTTTGGCGTATACCATCGAGAGCCCCAGTGCACCGATAATCGTCACCAACCATCCATaaa                                                                                                                                            >  2:62745/1‑150 (MQ=255)      aCGTTGGTTTGATAACCGAGAAACGGGCCAAAGCAGCGGCGGGCGTAAGCGTAAGAACCACCAGGACTTGGGTCGAGGAACGACATTTTGGCGTATACCATCGAGAGCCCCAGTGCACCGATAATCGTCACCAACCATCCATAAATGGCa                                                                                                                                       >  1:500265/1‑150 (MQ=255)          tGGTTTGATAACCGAGAGACGGGCCAAAGCAGCGGCGGGCGTAAGCGTAAGAACCGCCAGGACTTGGGTCGAGGAACGACATTTTGGCGTATACCATCGAGAGCCCCGGTGCACCGATAATCGTCACCAACCATCCATAAATGGCAA‑Tc                                                                                                                                   <  2:301432/149‑1 (MQ=255)          tGGTTTGATAACCGAGAAACGGGCCAAAGCAGCGGCGGGCGTAAGCGTAAGAACCACCAGGACTTGGGTCGAGGAACGACATTTTGGCGTATACCATCGAGAGCCCCAGTGCACCGATAATCGTCACCAACCATCCATAAATGGCAA‑Tcc                                                                                                                                  <  1:246640/150‑1 (MQ=255)            gTTTGATAACCGAGAAACGGGCCAAAGCAGCGGCGGGCGTAAGCGTAAGAACCACCAGGACTTGGGTCGAGGAACGACATTTTGGCGTATACCATCGAGAGCCCCAGTGCACCGATAATCGTCACCAACCATCCATAAATGGCAA‑TCCCGc                                                                                                                               >  2:486373/1‑151 (MQ=255)                   aaCCGAGAAACGGGCCAAAGCAGCGGCGGGCGTAAGCGTAAGAACCACCAGGACTTGGGTCGAGGAACGACATTTTGGCGTATACCATCGAGAGCCCCAGTGCACCGATAATCGTCACCAACCATCCATAAATGGCAA‑TCCCGCCAg                                                                                                                            >  1:66556/1‑147 (MQ=255)                          aaaGGGGCAAAAGCAGGGGCGGGCGTAGGCGAAAGACCCCCAAGGACTTGGGCCGAGGACCGACATTTGGGCGTATCCCATCGAGAGCCCCAGTGCACGGAAAATCGTCCCAAACCATCCAAAAATGGCAA‑TCCCGCCAGTAGAGGCCAg                                                                                                                  <  2:100900/150‑1 (MQ=255)                                 ccAAAGCAGCGGCGGGCGTAAGCGTAAGAACCACCAGGACTTGGGTAGAGGAACGACATTTTGGCGTATACCATAGAGAGCCCCAGAGCACCGATAATCGTCACCAACCATCCATAAATGGCAA‑TCCCGCCAGTAGAGGACAGGTTTg                                                                                                             >  2:699901/1‑148 (MQ=255)                                   aaaGCGGCGGGGGGCGAAAGCGAAAAAACCACCAGGCCTGGGGTCGAGGACCAACATTTTGGCGTATCCCACCGAGGGCCCCAGTGCACCAATAATCGTCACCACCCATCCATAAATGGCAA‑CCCCGCCAGTAGAGGCCAGGTTTGCAg                                                                                                          <  2:226289/149‑1 (MQ=255)                                   aaaGCAGGGGGGGGCGAAAGCGAAAAACCCACCAGGCCTGGGGTCGAGAAACGACATTTGGGCGTACCCCACCGAGACCCCCGGTGCACAGATATTCGTCACAACCCACCAAAAAATGGCAA‑TCCCGCCAGTAGAGGCCAGGTTTGc                                                                                                            <  2:135417/147‑1 (MQ=255)                                     accaggGGCGGTCGTAACCATAAAACCCCCCAGGACTTGGGTGGGGAAACGACGTTTGGGCTTATGCCAACAAAACCCCCAGTCCCCCGAAAGTCGTCCCCAACCTTCCAAAAAGGGCAA‑TCCCGCCAGTAGAGGCCAGGTTTGCAGGTa                                                                                                       <  1:513458/148‑1 (MQ=255)                                          cggcggGCGTAAGCGTAAGAACCACCAGGACTTGGGTCGAGGAACGACATTTTGGCGTATACCATCGAGAGCCCCAGTGCACCGATAATCGTCACCAACCATCCATAAATGGCAA‑TCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGa                                                                                                  >  1:163490/1‑150 (MQ=255)                                                     agcataaaACCCCCCAGGACTTGGGTCGAGGAACGACTTTTGGGGGTATCCCAGCGAGGCCCCCAGGGCACCGAAATTCGTCCCCACCCATCAAAAAAGGGCAA‑CCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTg                                                                                        <  2:61281/149‑1 (MQ=255)                                                                                 agaaaCGACATTTTGGCGTATACCATCGAGACCCCCAGTGCCCCGATAATCGTCCCCACCCACCCAAAAATGGCAA‑TCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAgg                                                           <  1:718536/147‑1 (MQ=255)                                                                                    aaCGACATTTGGGCGTACCCCACCGAGCCCCCCAGTCCCCCGTTAACCGTCCCCACCAACCCAAAAATGCCAC‑CCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAGGGt                                                         <  2:110850/149‑1 (MQ=255)                                                                                      cGACATTTTGGCTTATCCCACCGAGACCCCCAGTGCACCAATATTCGTCCCCACCCATCCAAAAATGCCAA‑TCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAGGGTGACg                                                     <  1:175418/151‑1 (MQ=255)                                                                                                gCGTATACCATCGAGAGCCCCAGTGCACCGATAATCGTCACCAACCATCCATAAATGGCAA‑TCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAGGGTGACGGGGATTAAGc                                           >  2:445324/1‑151 (MQ=255)                                                                                                       ccATCGAGAGCCCCAGTGCACCGATAATCGTCACCAACCATCCATAAATGGCAA‑TCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAGGGTGACGGGGATTAAGCCCACttt                                    >  1:77028/1‑151 (MQ=255)                                                                                                           cGAGAGCCCCAGTGCACCGATAATCGTCACCAACCATCCATAAATGGCAA‑TCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAGGGTGACGGGGATTAAGCCCACTTtgtg                                 >  1:400880/1‑150 (MQ=255)                                                                                                            gagaCCCCCAGTGCCCCGATAATCGTCACCAACCACCAAAAAAGGGAAA‑CCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAGGGTGACGGGGATTAAGCCCACTTtgtg                                 <  1:380188/149‑1 (MQ=255)                                                                                                              gacccccAGGGCACCGAAAACCGCCCCAACCCATCAAAAAAGGACAA‑TCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAGGGTGACGGGGATTAAGCCCACTTTGTGagca                             <  1:693258/148‑1 (MQ=255)                                                                                                                  cccTGTGCCCCGAAAATGGCCACCACCCACCAAAAAATGGCAA‑CCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAGGGTGACGGGGATTAAGCCCACTTTGTGagcatcag                         <  2:14239/151‑1 (MQ=255)                                                                                                                   ccAGTGCACCGATAATCGTCACCAACCATCCATAAATGGCAA‑TCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAGGGTGACGGGGATTAAGCCCACTTTGTGagcatcagc                        >  2:422205/1‑151 (MQ=255)                                                                                                                         cACCAAAAATCGCCACCACCCACCCAAAAAGGACAA‑TCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAGGGTGACGGGGATTAAGCCCACTTTGTGAGCATCAGCATCCg                   <  1:532280/150‑1 (MQ=255)                                                                                                                           ccaaTACTCGCCACCACCCACCCA‑AAAAGGCAACTCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAGGGTGACGGGGATTAAGCCCACTTTGTGAGCATCAGCATcc                    <  2:681659/144‑1 (MQ=255)                                                                                                                           ccGATAATCGTCCCCAACCACCCAAAAATGGCAA‑TCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAGGGTGACGGGGATTAAGCCCACTTTGTGAGCATCAGCATCCGAAg                <  2:488240/151‑1 (MQ=255)                                                                                                                               tAATCGTCACCAACCATCCATAAATGGCAA‑TCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAGGGTGACGGGGATTAAGCCCACTTTGTGAGCATCAGCATCCGAAGACAt            >  2:614971/1‑151 (MQ=255)                                                                                                                                aaTCGCCCCCACCCATCCAAAAATGCCAA‑CCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAGGGTGACGGGGATTAAGCCCACTTTGTGAGCATCAGCATCCGAAGACATa           <  1:163919/151‑1 (MQ=255)                                                                                                                                    gTCCCCAACAACCAAAAAATGGCAA‑CCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAGGGTGACGGGGATTAAGCCCACTTTGTGAGCATCAGCATCCGAAGACATAATTa       <  1:578457/151‑1 (MQ=255)                                                                                                                                          acaaacccatAAATGCCAC‑CCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAGGGTGACGGGGATTAAGCCCACTTTGTGAGCATCAGCATCCGAAGACATAATTAAACTc  <  2:616871/144‑1 (MQ=255)                                                                                                                                          aaccaTCCAAAAAGGGCAA‑CCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAGGGTGACGGGGATTAAGCCCACTTTGTGAGCATCAGCATCCGAAGACATAATTAAACt   <  1:643262/149‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                              AGAGGACGTTGGTTTGATAACCGAGAAACGGGCCAAAGCAGCGGCGGGCGTAAGCGTAAGAACCACCAGGACTTGGGTCGAGGAACGACATTTTGGCGTATACCATCGAGAGCCCCAGTGCACCGATAATCGTCACCAACCATCCATAAATGGCAA‑TCCCGCCAGTAGAGGCCAGGTTTGCAGGTAACAGAAAAACACCTGACCCCATAATATTCCCCGACACCATCAGGGTGACGGGGATTAAGCCCACTTTGTGAGCATCAGCATCCGAAGACATAATTAAACTC  >  NC_000913/4336755‑4337041

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑