Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP009273	2,145,170	G→T	26.4%	intergenic (+43/+22)	yegJ → / ← yegK	uncharacterized protein/ser/thr phosphatase‑related protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP009273	2,145,170	0	G	T	26.4%	58.0 / 6.6	51	intergenic (+43/+22)	yegJ/yegK	uncharacterized protein/ser/thr phosphatase‑related protein
Reads supporting (aligned to +/- strand):  ref base G (17/19);  new base T (9/5);  total (27/24)
Fisher's exact test for biased strand distribution p-value = 3.52e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.66e-01

GGGATAAAATTTACGGCGGTTATACCATTGATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTGAATTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTTGCTGCCGC  >  CP009273/2145033‑2145317                                                                                                                                           |                                                                                                                                                    gggATAAAATTTACGGCGGTTATACCATTGATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTGAATTGTTGTCTTCAACCGcc                                                                                                                                         <  1:471068/150‑1 (MQ=255)  ggATAAAATTTACGGCGGTTATACCATTGATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTGAATTGTTGTCTTCAACCGCCa                                                                                                                                        <  2:736608/150‑1 (MQ=255)                 cgtttATACATTTGATCTTTTATTGGCCCCCAACCAAAAAGAAAAAGCCGACGAGCAAAGAGAAAAATTATTCCCCTAATCAGCCGTTATTTTTTTTTTTTAAACGGGCGT‑TTAAATTGTTGTCTTCAACCGCCATGAGAAACTCActct                                                                                                                         <  2:606328/147‑1 (MQ=255)                   gTTATACCATTGATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTGAATTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGc                                                                                                                       >  1:681267/1‑150 (MQ=255)                    ttATACCATTGATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTGAATTTTTTTTTTCAACCGCCCTGAGAAAATCACTCTGcc                                                                                                                      >  2:971839/1‑150 (MQ=255)                     tatcCCATTGATCTTTTATTGGCCCCCTACCAAAAAAAAGAAGCCGACGAGCTAAGAGAAAAATTATTTCGCTAACCAGCCGTTATTTTTATTGTTTAACCGGGCGG‑TTGAATTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGcc                                                                                                                      <  1:971839/149‑1 (MQ=255)                            ttGATCTTTTATTGGTCACCTAACAAAAAAAAGAAGCCGACGAGAAAAGAAAAAAATTAGTTCGATAATCAGCCTTTATATTTATTTTTAAAACGGGCGG‑TTAATTGGTTGTCTTAAACCGCCATGAGAAACTCACTCTGCCCACAgcg                                                                                                               <  2:48610/149‑1 (MQ=255)                              gATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTTAATTGTTTTCTTTAACCGCCATGAGAAACTCACTCTGCCCCCAgcgc                                                                                                              >  2:101589/1‑148 (MQ=255)                              gATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTGAATTTTTGTTTTCAACCGCCATGAGAAACTCACTCTGCCCACAacgc                                                                                                              >  2:831952/1‑148 (MQ=255)                                tcttttATTGCTCCCCTATAAAAAAGAAGAAGCCGACGAGCTAAGAAAAAAATTTTTCCGCTAATCAGCCGTTATATTTTTTGTTAAACCTGGCGT‑TTAAATTTTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAg                                                                                                           <  2:1075648/146‑1 (MQ=255)                                   tttATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTGAATTGTTTTCTTCAACCGCCCTGAGAAACTCACTCTGCCCACAGCGCCAGGGcc                                                                                                       >  2:409637/1‑150 (MQ=255)                                    tttttGGCCACCTACCCAAAAAAAGAACCCGAGAAGATAAGAGAAAAATTATTTCCTAAATCACCCTTTATATTTATTTTTAAAACGGGCGT‑TTGAATTTTTTTCTTAAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTg                                                                                                         <  1:233038/144‑1 (MQ=255)                                    ttATTGGCCCCCTATCAAAAAGAAGAACCCGAGGAGCTAAGAAAAAAATTATTTCCCAAATCGGCCTTTATTTTTATTGTTTAACCTGGCGG‑TTAAATTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAg                                                                                                           <  1:24345/145‑1 (MQ=255)                                       ttGGTCACCTATACAAAAGAAGAAGCCGACGAGCTAAGAGAAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTAAAACTGGGGG‑TTGAATTGTTGTCTCCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAAc                                                                                                    <  2:873441/149‑1 (MQ=255)                                        tGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTGGATTGTTTTCTTCAACCGCCATGAGAAAATCACTCTGCCCACAGCGCCAGCGGCAACGt                                                                                                  >  2:425191/1‑150 (MQ=255)                                               cTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTGAATTGTTGTCTTCAACCGCCCTGAGAAACTCACTCTGCCCCCAGCGCCAGTGCCCACGGTTTttca                                                                                           >  2:640454/1‑150 (MQ=255)                                                tATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTGAATTGTTGTCTTTAACCGCCATGAGAAAATCACTCTGCCCACAGCGCCAGGGCCAACGGTTTatcat                                                                                          >  1:519617/1‑150 (MQ=255)                                                  tCCAAAAGAAGAAGCCGACGAGATAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTAAAACGGGCGG‑TTGAATTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTatcatca                                                                                        <  1:179021/150‑1 (MQ=255)                                                   caaaaaaaAGAAGCCGACGAGCTAAGAGCAAATTTAGTTCGCTAATCAGCCTTTATATTTTTTTTTTAAACGGGCGG‑TTGATTTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTatcatcat                                                                                       <  1:28315/148‑1 (MQ=255)                                                    cAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTGAATTGTTGTCTTCAACCGCCATGAGAAAATCACTCTGCCCACAGCGCCAGTGCCAACGTTTTatcatcatc                                                                                      >  1:72564/1‑150 (MQ=255)                                                    aaaaaGAAGAAGCCGACGAGAAAAGAGAAAAATTAGTTCGTTAATCAGCCTTTATATTTTTTTTTTAAACGGGCGG‑TTGAATTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTatcatcat                                                                                       <  1:101370/148‑1 (MQ=255)                                                      aaaaaaGAACCCGACGAGCAAAGAACAAATTTATTCCCCTATTCACCTTTTTTTTTTTTTTTTTAACCGGGCGT‑TTAATTTTTTTTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCg                                                                                    <  2:584942/150‑1 (MQ=255)                                                                 cgacgaGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTGAATTGTTTTCTTCAACCGCCATGAGAAAATCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGttt                                                                         >  2:276557/1‑150 (MQ=255)                                                                 cgacgaGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTGAATTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAACGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGtt                                                                          >  2:304610/1‑149 (MQ=255)                                                                  gacgaGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTGAATTGTTTTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTa                                                                        >  1:846463/1‑150 (MQ=255)                                                                    ggggCTAAGAGAAAATTTAGTTCGCTAATCAGCCTTTATTTTTATTGTTTAAACGGGCGG‑TTGAATTGTTGTCTCAACCCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTAcc                                                                      <  2:1067666/147‑1 (MQ=255)                                                                    cgaGGTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTTTTTAAACTGGCGG‑TTGAATTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTAcc                                                                      <  2:277560/150‑1 (MQ=255)                                                                       gcaaaGACCAAATTTATTCCGCTAATCAG‑CGTTTTTTTTTTTTTTTAAACCGGGGGTTTGAATTGTTTTCTCCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTAccgcc                                                                   <  1:811712/147‑1 (MQ=255)                                                                          aaGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTGGATTGTTGTCTTCAACCGCCATGAGAAAATCACTCTGCCCACAGCGCCAGGGCCAACGGTTTATCATCATCCGGACGCTCGCTTACCGCCggg                                                                >  1:306772/1‑150 (MQ=255)                                                                             agCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTTAATTGTTTTCTTCAACCGCCATTAGAAACTCACTCTGCCCACAGCGCCAGTGCCCACGTTTTATCATCATCCGTACGCTCGTTTACCCCCGGGCTg                                                             >  1:713606/1‑150 (MQ=255)                                                                               cAAAATTGTTTCGCTAATCAGCCTTTATATTTTTTGTTTAACCTGGGGG‑TTGATTTTTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGGGCTGGa                                                           <  1:353457/150‑1 (MQ=255)                                                                               cAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTGAATTGTTTTCTTCAACCGCCCTGAGAAACTCACTCTTCCCACAGCGCCAGTGCCAACGTTTTTTCATCATCCCTACGCTCGTTTACCCCCGGGCTggg                                                           >  2:480661/1‑149 (MQ=255)                                                                               aaaaaTTATTTCGTTAACCAGCTTTTATATTTATTTTTAAAACTGGCGT‑TTGATTTTTTGTCTTAAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGGGCTGGa                                                           <  1:101589/149‑1 (MQ=255)                                                                                   aTTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTGAATTGTTGTCTTCAAACCCCAAGAGAAAATCACTCTGCCCACAGCGCCAATGCCAACGTTTTATTATTATTCGTACGCCCGTTTTCCGCCGGGCTGGGCaa                                                        >  1:1102004/1‑149 (MQ=255)                                                                                     tAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑GTGAAATGTTGTCTTCAACCGCCATGAGAAAATCACTCTGCCCACAGCGCCAGTGCCAAAGGTTTATTATCATCCGTAAGCCCGGTTAACGCCCGGCTGGGCaaaa                                                      >  2:1076385/1‑149 (MQ=255)                                                                                        ttCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTGAATTGTTGTCTTCAAACGCCATGAGAAACTCACTCTGCCCACAACGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGGGCTGGACAAAAAATg                                                  >  1:387521/1‑150 (MQ=255)                                                                                                tCAGCCGTTATTTTTATTTTTTAAACGGGCGG‑TTGATTTGTTTTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACa                                          <  2:681267/150‑1 (MQ=255)                                                                                                     cGTTATATTTATTGTTTAAACTGGCGG‑ATGAATTTTTGTCTTCAACAGCCCTGAGAAACACACTCTCCCCCCTGCGCCAGGGCCAACGATTTTTCATAAATCGGACGCCCCTTTACCGCCGGGCGGGGGAAAAAACGCttttaaaaat                                       >  1:821851/1‑141 (MQ=255)                                                                                                       ttATATTTATTGTTTAAACTGGCGG‑TTGAATTGCTCTCTTCCACCGTCATTAGAAACTCCCTCTGCCCACACCGCCACAGTCCACGTTTTATCATCATCCGTTCCCTCGTTTACCCCCCGGCTGGACAAAAACCGCTTTAACAATTGAgg                                   >  1:718967/1‑150 (MQ=255)                                                                                                           atttattGTTTAAACTGGCGG‑TTGAATTTTTGTCTTCAACCCCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCCACGTTTTATCATCATCCGTACGCTCGTTTTCCCCCGGGCTGGACAAAAACTGCTTTTACAATTCCGGgaa                                >  2:441306/1‑149 (MQ=255)                                                                                                            ttttttttTAAAACGGGGGT‑TTAATTTGTTGTTTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGtaat                               <  1:34444/149‑1 (MQ=255)                                                                                                            tttattGTTTAAACTGGCGG‑TTGAATTTTTTTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTTTCATCATCCGTACGCTCGTTTACCGCCCGGCTGGGCAAAAACTGCTTTAACAATTCAGGgaat                               >  2:48136/1‑149 (MQ=255)                                                                                                                     tAAACTGGCGG‑TTGAATTGTTGTCTTTAACCGCCATGAGAAACTCACTCCGCCCCCAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAgtt                     >  2:681448/1‑150 (MQ=255)                                                                                                                     tAAACTGGCGG‑TTGAATTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATTGAgtt                     >  1:758875/1‑150 (MQ=255)                                                                                                                         cgggggg‑TTGATTTGTTGTCTCAAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTc                 <  1:640454/145‑1 (MQ=255)                                                                                                                         cTGGCGG‑TTGAATTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTc                 >  2:641670/1‑150 (MQ=255)                                                                                                                           ggCGG‑TTAAATTGTTGTGTTAAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCt               <  2:158804/150‑1 (MQ=255)                                                                                                                                  tGAATTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTtg         >  2:710685/1‑150 (MQ=255)                                                                                                                                    aaTTTTTTTCTTAAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTtgc        <  1:871558/149‑1 (MQ=255)                                                                                                                                    aaTTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTtgct       >  1:627623/1‑150 (MQ=255)                                                                                                                                    aaTTGTTGTCTCCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTtgct       <  1:216619/150‑1 (MQ=255)                                                                                                                                     tttgtttTCTCCACCCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTtgctg      <  2:306772/149‑1 (MQ=255)                                                                                                                                         ttgtCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTTGCTgccgc  >  1:1041453/1‑150 (MQ=255)                                                                                                                                           |                                                                                                                                                    GGGATAAAATTTACGGCGGTTATACCATTGATCCTTTATTGGTCACCTATCCAAAAGAAGAAGCCGACGAGCTAAGAGCAAAATTAGTTCGCTAATCAGCCGTTATATTTATTGTTTAAACTGGCGG‑TTGAATTGTTGTCTTCAACCGCCATGAGAAACTCACTCTGCCCACAGCGCCAGTGCCAACGTTTTATCATCATCCGTACGCTCGTTTACCGCCGGGCTGGACAAAAACTGCTTTAACAATTCAGGTAATAAATCGAGTTGTTCCTGCGTTGCTGCCGC  >  CP009273/2145033‑2145317

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑