Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,386,862	0	G	A	46.2%	40.5 / 44.0	52	intergenic (+31/‑72)	yfbL/yfbM	putative M28A family peptidase/DUF1877 family protein
Reads supporting (aligned to +/- strand):  ref base G (2/26);  new base A (24/0);  total (26/26)
Fisher's exact test for biased strand distribution p-value = 1.52e-12
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TTTTATCGTAATAAACAATACCACTTGCCCGGTGATACCGCAGACAGATTGAATTATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATGGGAATGATTGGCTATTTTGCAGAAATTGACTCAGAAAAGATTAACCAACTGCTTGAGTCTACTGAAAAACCTT  >  NC_000913/2386718‑2387009                                                                                                                                                 |                                                                                                                                                    ttttATCGTAATAAACAATACCACTTGCCCGGTGATACCGCAGACAGATTGAATTATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAGCGAc                                                                                                                                                 <  1:211115/149‑1 (MQ=255)  tttATCGTAATAAACAATACCACTTGCCCGGTGATACCGCAGACAGATTGAATTATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAACGACa                                                                                                                                                >  1:553866/1‑149 (MQ=255)        gTAATAAACAATACCACTTGCCCGGTGATACCGCAGACAGATTGAATTATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGGCCAGAAAAAAAGACAAGcaaaat                                                                                                                                        >  1:819911/1‑147 (MQ=255)         taataaACAATACCACTTGCCCGGTGATACCGCAGACAGATTGAATTATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCCAAAAAAACGACAAGcaccatt                                                                                                                                       >  1:174358/1‑147 (MQ=255)         taataaACAATACCACTTGCCCGGTGATACCGCAGACAGATTGAATTATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGGAAAAAAGACAAGGACattt                                                                                                                                       >  2:702019/1‑151 (MQ=255)            taaACAATACCACTTGCCCGGTGATACCGCAGACAGATTGAATTATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAACGACAAGCAAatttttt                                                                                                                                    >  2:184032/1‑149 (MQ=255)               aCAATACCACTTGCCCGGTGATACCGCAGACAGATTGAATTATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCCGAAAAAAAGACATGCACaatttttttt                                                                                                                                 >  1:582002/1‑151 (MQ=255)               aCAATACCACTTGCCCGGTGATACCGCAGACAGATTGAATTATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAAAGACATGCACaatttttttt                                                                                                                                 >  1:139634/1‑151 (MQ=255)                cAATACCTCTTGGGCGGTGATACCTCAGACAGATTGAAGTATCAGAATATGACTCAGTTAGTGGATGGTGTTATATCTTTGTTATACAACAGTAAATAGTAAAAAGTTCTCGACGCTGGTCCAGAAAATGCGACATGCACtttttatt                                                                                                                                   <  2:189640/148‑1 (MQ=255)                     ccACTTGCCCGGTGATACCGCAGACAGATTGAATTATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCCGAAAAAAAGACATGCACattttttttt                                                                                                                                 >  2:163865/1‑145 (MQ=255)                      cACTTGCCCGGTGATACCGCAGACAGATTGAATTATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCAt                                                                                                                          <  2:731921/151‑1 (MQ=255)                           gCCCGGTGATACCGCAGACAGATTGAATTATTAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGtt                                                                                                                     <  2:289671/151‑1 (MQ=255)                            cccGGTGATACCGCAGACAGATTGAATTATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGGCCAGAAAAAACGACAAGCACAATTTTTTTTTCCTCCTCTtttt                                                                                                                    >  1:201571/1‑151 (MQ=255)                                  gATACCGCAGACAGATTGAATTATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGTTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGAt                                                                                                              <  2:207967/151‑1 (MQ=255)                                    tACCGCAGACAGATTGAATTATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGGCCAGAAAAAAAGAAATGCACAATTTATTTTTCCTCATCTGTTTTaa                                                                                                                 >  1:822453/1‑146 (MQ=255)                                       cGCAGACAGATTGAATTATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGaa                                                                                                         <  1:55389/151‑1 (MQ=255)                                          agacagaTTGAATTATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACa                                                                                                      <  1:285195/151‑1 (MQ=255)                                                 ttGAATTATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGGCCCGAAAAAACGACAAGCACAATTTTTTTTTCCTCCTCTGTTTTTAGAttgggaaaattaaa                                                                                                 >  1:593280/1‑136 (MQ=255)                                                   gAATTATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCCGAAAAAAAGACATGCACATTTTATTTTTCCCCCTCTTTTTTTATATTGGAAAAATTaaa                                                                                                 >  1:226497/1‑147 (MQ=255)                                                       tATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCCGAAAAAACGACATGCACATTTTTTTTTTCCTCATCTGTTTTTAGATGCGAAAAAAGAAAATTAACgg                                                                                         >  1:326880/1‑151 (MQ=255)                                                          cAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACggag                                                                                       <  2:40774/150‑1 (MQ=255)                                                            gAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAACGACAAGCACATTTTTTTTTTCCTCCTCTGTTTTTAGATGCGAAACAAGAAAATTAACggggg                                                                                      >  1:279103/1‑149 (MQ=255)                                                             aaaaTGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGATGaaa                                                                                   <  2:199163/151‑1 (MQ=255)                                                               aaTGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGaaaaa                                                                                 <  1:900086/151‑1 (MQ=255)                                                                 tGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAAAGACACGCACCTTTTTTTTTTCCTCCTCTTTTTTAAAATGCCAAAAATGGAAATTAACGGAGGaaaaa                                                                                 >  1:950099/1‑149 (MQ=255)                                                                    cTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCCGAAAAAACGACAAGCACAATTTATTTTTCCTCATCTGTTTTTAGATGCGAAACATGAAATTTAAAGGAGGAaaaaaaaa                                                                             >  1:107452/1‑150 (MQ=255)                                                                    cTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGGCCAGAAAAAAAGAAAAGCACAATTTTTTTTTCCTCATCTGTTTTTAAATGCGAAACATGAAATTAAAAGGAGGAAaaataaa                                                                             >  1:135179/1‑150 (MQ=255)                                                                     tCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCCAAAAAAAAAGCACGGGCAATTTTTTTTTTCTCCTCTGTTTTTTGAAGGGGAACACTAAAATCAAAGGAAGaaa                                                                                   >  1:466702/1‑143 (MQ=255)                                                                      cAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATg                                                                           <  1:922294/150‑1 (MQ=255)                                                                      cAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATg                                                                           <  2:822918/150‑1 (MQ=255)                                                                      cAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATg                                                                           <  1:680249/150‑1 (MQ=255)                                                                           aGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATGGGAATg                                                                     <  1:541996/151‑1 (MQ=255)                                                                            gTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATGGGAATGa                                                                    <  2:827128/151‑1 (MQ=255)                                                                              ggATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAAAGACAAGCACATTTTATTTTTTCTCATCTGTTTTTAGAAGCGAAACAAGAAAATCAAAGGAGGAAAAATAAAATGGAATGAtt                                                                  >  2:857244/1‑151 (MQ=255)                                                                                        ataACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATGGGAATGATTGGCTATTTTg                                                        <  2:860040/151‑1 (MQ=255)                                                                                        ataACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAACGACATGCACATTTTTTTTTTCCTCCTCTGTTTTTAGATGCGAAAAAAGAAATTTAACGGAGGAAAAATAAATGGGGATGATTTGCTAttttt                                                        >  1:881594/1‑150 (MQ=255)                                                                                        ataACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAAAAAAATGAAAATTTTATTTTTTCTCATCTGTTTTTAGATGGGAAAAAAGAAAAATAACAGAGGGAAAAAAAAAGGGAAAGAATTGGTAtttt                                                         >  2:108227/1‑150 (MQ=255)                                                                                              ttGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATGGGAATGATTGGCTATTTTGCAGaa                                                   <  2:174345/150‑1 (MQ=255)                                                                                              ttGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATGGGAATGATTGGCTATTTTGCAGaa                                                   <  1:184045/150‑1 (MQ=255)                                                                                                 ttATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAAAGACAAGCACAATTTTTTTTTCCTCCTCTGTTTTTAGAAGCGAAAAAAGAAAATCAACGGAGGAAAAATAAAAGGGAATGATTGGCTATTTTTCAGaaa                                                  >  1:54141/1‑148 (MQ=255)                                                                                                           gTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATGGGAATGATTGGCTATTTTGCAGAAATTGACTCAGaaaa                                     <  2:37139/151‑1 (MQ=255)                                                                                                                taataaAAATTTCTCGAGGCGGGTCCAGAAAAAAAGACAAGCACATTTTTTTTTTCCTCATCTGTTTTTAGATGCGAAACAAGAAAATCAACGGAGGGAAAATAAAAGGGAATGATTGGCTATTTTTCAGAAAATGACTCAGaaaaaa                                   >  2:268664/1‑146 (MQ=255)                                                                                                                    aaaaaTTTCTCGAGGCGGGTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATGGGAATGATTGGCTATTTTGCAGAAATTGACTCAGAAAAGATTAACCa                            <  2:101265/151‑1 (MQ=255)                                                                                                                               gAGGCGGGGCCACAAAAAAAGACATGCCCATTTTATTTTTCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATGGGAATGATTGGCTATTTTGCAGAAAATGACTCAGAAAAGATTAACCAACTCCTTGAGt                 >  2:749437/1‑151 (MQ=255)                                                                                                                                    gggTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATGGGAATGATTGGCTATTTTGCAGAAATTGACTCAGAAAAGATTAACCAACTGCTTGAGTCTACt            <  1:421917/151‑1 (MQ=255)                                                                                                                                    gggTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATGGGAATGATTGGCTATTTTGCAGAAATTGACTCAGAAAAGATTAACCAACTGCTTGAGTCTACt            <  1:234109/151‑1 (MQ=255)                                                                                                                                    gggTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATGGGAATGATTGGCTATTTTGCAGAAATTGACTCAGAAAAGATTAACCAACTGCTTGAGTCTACt            <  2:781269/151‑1 (MQ=255)                                                                                                                                        ccAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATGGGAATGATTGGCTATTTTGCAGAAATTGACTCAGAAAAGATTAACCAACTGCTTGAGTCTACTGaaa        <  2:483462/151‑1 (MQ=255)                                                                                                                                         cAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATGGGAATGATTGGCTATTTTGCAGAAATTGACTCAGAAAAGATTAACCAACTGCTTGAGTCTACTGaaaa       <  2:139622/151‑1 (MQ=255)                                                                                                                                          aGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATGGGAATGATTGGCTATTTTGCAGAAATTGACTCAGAAAAGATTAACCAACTGCTTGAGTCTACTGaaaa       >  1:70327/1‑150 (MQ=255)                                                                                                                                            aaaaaGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATGGGAATGATTGGCTATTTTGCAGAAATTGACTCAGAAAAGATTAACCAACTGCTTGAGTCTACTGAAAAAcc    >  2:980575/1‑151 (MQ=255)                                                                                                                                              aaaGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATGGGAATGATTGGCTATTTTGCAGAAATTGACTCAGAAAAGATTAACCAACTGCTTGAGTCTACTGAAAAACCtt  <  1:799874/151‑1 (MQ=255)                                                                                                                                                 |                                                                                                                                                    TTTTATCGTAATAAACAATACCACTTGCCCGGTGATACCGCAGACAGATTGAATTATCAGAAAATGGCTCAGGTAGTGGATGGTGTTATAACTTTGTTATACAACAGTAAATAATAAAAATTTCTCGAGGCGGGTCCAGAAAAAGCGACATGCACATTTTATTTTCCCTCATCTGTTTTAAGATGCGAAACATGAAATTCAACGGAGGAAAAATAAATGGGAATGATTGGCTATTTTGCAGAAATTGACTCAGAAAAGATTAACCAACTGCTTGAGTCTACTGAAAAACCTT  >  NC_000913/2386718‑2387009

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑