Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,604,344	0	C	T	43.2%	32.5 / 17.1	37	S62F (TCT→TTT)	bglJ	bgl operon transcriptional activator
Reads supporting (aligned to +/- strand):  ref base C (6/15);  new base T (16/0);  total (22/15)
Fisher's exact test for biased strand distribution p-value = 6.07e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CATAGAAAAATGCGTCATGAGTAGTATCGGTATTGAGAGTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGTTTAGTTATTGCGGATGATGATATTGAAGCTCGGCTGATTGGTTCATTGTCGCCATCACCGCTGG  >  NC_000913/4604198‑4604490                                                                                                                                                   |                                                                                                                                                   cATAGAAAAATGCGTCATGAGTAGTATCGGTATTGAGAGTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATtttttctttt                                                                                                                                                <  2:366560/151‑1 (MQ=255) cATAGAAAAATGCGTCATGAGTAGTATCGGTATTGAGAGTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATtttttcttt                                                                                                                                                 <  1:404560/150‑1 (MQ=255)   tAGAAAAATGCGTCATGAGTAGTATCGGTATTGAGAGTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATtttttcttttt                                                                                                                                               >  2:331493/1‑150 (MQ=255)    aGAAAAATGCGTCATGAGTAGTATCGGTAGTGAGAGTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATtttttctttttc                                                                                                                                              <  2:80579/150‑1 (MQ=255)       gaaaTGCGTCATGAGTAGTATCGGTATTGAGAGTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATtttttcttttttttgc                                                                                                                                          >  2:593160/2‑146 (MQ=255)       aaaaTGCGTCATGAGTAGTATCGGTATTGAGAGTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCAtttttttttttttttcc                                                                                                                                          >  1:207749/1‑146 (MQ=255)        aaaTGCGTCATGAGTAGTATCGGTATTGAGAGTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCAtttttttttttttt                                                                                                                                             >  1:704431/1‑145 (MQ=255)                    agtagtATCGGTATTGAGAGTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAgc                                                                                                                             <  2:353066/151‑1 (MQ=255)                         taTCGGTATTGAGAGTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTTTTTTTTTGCCATGAGAAGTGGgcg                                                                                                                            >  1:690972/1‑147 (MQ=255)                            cGGTATTGAGAGTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTTTTTTTTTGCCATTAGAAGTGAGCGCagag                                                                                                                       >  1:159236/1‑149 (MQ=255)                                 ttGAGAGTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTTTTCCCTGAGAAGGGAGCGCAGGGAGGGGtt                                                                                                                >  2:576408/1‑151 (MQ=255)                                   gagaGTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGGCAGGAGTCATTTCAGGATGCCATGGCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTAt                                                                                                              <  2:174830/151‑1 (MQ=255)                                    agagTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTAt                                                                                                              <  2:460380/150‑1 (MQ=255)                                     gagTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTTTTTTTTTTCCATGGGAAGGGAggggaggggggggtt                                                                                                                >  1:296709/1‑133 (MQ=255)                                            ttCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTTTTTTTTTGCCATGAGAAGGGAGCGCAGAGAGGGATTATCTTGCct                                                                                                       >  1:190293/1‑149 (MQ=255)                                              cAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCctgac                                                                                                    <  2:436111/150‑1 (MQ=255)                                               aGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCCTTTTTTTTTTTTTTGCCATGAGAAAGGAGGGCCGAGAGGGGGTATCTTGCctgactg                                                                                                  >  1:370020/1‑151 (MQ=255)                                               aGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTTTTTTTTTTCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCctgact                                                                                                   >  1:712982/1‑150 (MQ=255)                                                 aaaGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTTTTTTTTTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTTCctgactga                                                                                                 >  1:706358/1‑150 (MQ=255)                                                    gTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTg                                                                                             <  1:178794/151‑1 (MQ=255)                                                                cccTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCCTTTTTTTTTTTTTTGCCATGAGGAGAGGGGGGGGAGAGGGTATATTTTGCCTGACTGGACTGGCGGTTAAGttt                                                                                 >  1:155058/1‑151 (MQ=255)                                                                 ccTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGGTTATCTTGCCTGACTGAACTGGCGATTAAggt                                                                                  >  1:238005/1‑147 (MQ=255)                                                                             cATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGc                                                                    <  1:182451/151‑1 (MQ=255)                                                                                aCCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGt                                                                  <  1:139928/150‑1 (MQ=255)                                                                                   tataCCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGGCTCTTTTTTTTTTTCTTCCCTGTGGAGGGGGGGCCGAGGGGGGTTATTTTGCCCGACTCAAATGGGGTTTTAGGTTTcgcggtaccggtggtt                                                                >  1:569448/1‑137 (MQ=255)                                                                                     taCCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTTTGGCATGAGAAGGGAGCGCAGCGGGGGATTTTTTTTCCTGACTGAACTGGCGGTTAAGTTTTCGCGTACCCGGCGGTTAGtt                                                            >  2:65741/1‑151 (MQ=255)                                                                                       ccAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGTTTAGTTAt                                                          <  1:652402/151‑1 (MQ=255)                                                                                         aGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCCTTTTTTTTTTTTCTTCCATGAGAAGTGAGCGCAGAGGGGGGTTTTCTTGCCTGACTGAAATGGGGATTAAGTTTCCGCGTACCCCGCGGTTTGTtttt                                                         >  1:507878/1‑150 (MQ=255)                                                                                         aGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGACATTTTTTTTTTTTTTGCGCTGGGAAAGGAGCGCAGGGGGGGATTTTTTTGGCTGACTTAACTGGGGATTAAGGTTGCGGGGACCCgggggtttgt                                                             >  2:706881/1‑138 (MQ=255)                                                                                           tCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTTTTTTTTTGTCCTGTGGAGGGGGGGCTGAGGGGGGTTATTTTTGCTTACTGAACTGGCGGTTTAGTTTTCGCGGACCCGGCGGTTTGTTATTGCg                                                      >  2:348965/1‑151 (MQ=255)                                                                                              ggAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTTTTTTTTTGCCCTGAGAAGTGAGCGCAGAGAGGGGTTATCTTGCCTGACTGAACTGGCGGTTTAGGTTTCGCGCACCCGGCGTTTTGTTAtttggg                                                     >  1:316106/1‑145 (MQ=255)                                                                                              ggAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGTTTAGTTATTGCGgat                                                   <  1:204391/151‑1 (MQ=255)                                                                                                   cATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCCTTTTTTCTTTTTTTGCCCTGAGAAGTGAGCGCCGAGGGGGGGTTTTTTGCCTGTCTTAACTGGCGAATAAGATTTCGCGGACCCCGCGGTTTGTTTTTGCGggtgat                                                >  2:267855/1‑149 (MQ=255)                                                                                                        cAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGTTTAGTTATTGCGGATGATGATAtt                                          <  1:53192/150‑1 (MQ=255)                                                                                                          ggATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGTTTAGTTATTGCGGATGATGATATTGaa                                       <  1:593344/151‑1 (MQ=255)                                                                                                            aTGCCATGTCGCGGATCTCGTTTGCGGCGGTCCTTTTTTCTTTTTTTGCCATTAGAAGGGAGCGCAGAGAGGGATTTTTTTGCCTGACTGAAATGGCGATTAAGGTTCCGCGTACCCGGCGTTTAGTTTTTGCGGGTGATGATATTTAAGc                                     >  2:483344/1‑151 (MQ=255)                                                                                                            aTGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTTTTTTTCTGCCCTGAGAAGGGAGCGCAGAGAGGGGTTTTCTTTCCCGACTGAACTGGCGATTAAAGTTCCGCGTACCCGGGGTTTTGTTATTTGGGGTGGTGATATTGaa                                       >  1:19092/1‑149 (MQ=255)                                                                                                              gCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGTTTAGTTATTGCGGATGATGATATTGAAGCTc                                   <  1:74885/151‑1 (MQ=255)                                                                                                                cATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTTTTTTTTTTCCATGAGAAGGGAGCGCAGAGAGGGGTTATTTTTCCTGACTTAACTGGCGATTAAGTTTCCGCGTACCCCGCGTTTTGTTTTTTCGGGTGGTGATATTTAAGCTCgg                                 >  1:199460/1‑151 (MQ=255)                                                                                                                     cgcgGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGTTTAGTTATTGCGGATGTTGATATTGAAGCTCGGCTGa                             <  1:114024/150‑1 (MQ=255)                                                                                                                      gcgGATCTCGTTTGCTGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAGCTGGCGATTAAGTTTCCGCGTACCCGGCGTTTAGTTATTGCGGATGATGATATTGAATCTCGGCTGa                             <  2:264258/149‑1 (MQ=255)                                                                                                                       cgGATCTCGTTTGCGGCGGTCATTTTTTTTTTTTTTGCCATGAGGAGTGAGGGCAGAGAGGGGTTATCTTGCCTGACTGAACTGGCGATTAAGGTTCCGCGTACCCGGCGTTTAGTTATTGCGGATGATGATATTGAAGCTCGGCTGAtt                           >  1:634634/1‑150 (MQ=255)                                                                                                                        ggATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTTCCATGAGAAGGGAGCGCAGAGAGGGGTTATTTTGTCTGACTGAACTGGCGAGTAAGTTTTCGCGTACCCGGCGTTTTGTTATTGCGGGTGATGATATTTAAGCTCGGCTGGtttg                         >  2:294428/1‑149 (MQ=255)                                                                                                                                        ggTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGTTTAGTTATTGCGGATGATGATATTGAAGCTCGGCTGATTGGTTCATTGTCGCCATCa         <  1:380073/151‑1 (MQ=255)                                                                                                                                               ttttctttttctGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGTTTAGTTATTGCGGATGATGATATTGAAGCTCGGCTGATTGGTTCATTGTCGCCATCACCGCTgg  >  2:584924/1‑151 (MQ=255)                                                                                                                                                tttctttttctGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGTTTAGTTATTGCGGATGATGATATTGAAGCTCGGCTGATTGGTTCATTGTCGCCATCACCGCTgg  <  1:23659/150‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                                   CATAGAAAAATGCGTCATGAGTAGTATCGGTATTGAGAGTTTATTCAGAAAGTTTGCGGGTAACCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGTTTAGTTATTGCGGATGATGATATTGAAGCTCGGCTGATTGGTTCATTGTCGCCATCACCGCTGG  >  NC_000913/4604198‑4604490

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑