Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	2,557,393	A→G	30.5%	D281G (GAT→GGT)	glxK →	glycerate kinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	2,557,393	0	A	G	30.5%	46.5 / 32.4	54	D281G (GAT→GGT)	glxK	glycerate kinase
Reads supporting (aligned to +/- strand):  ref base A (11/25);  new base G (8/8);  total (20/34)
Fisher's exact test for biased strand distribution p-value = 2.20e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.24e-01

ATAAGATAAAAATGTGCACAGGAAAGTCCGTTAATCAAATACCAGGTTCTGGTGCAGCTGGCGGTATGGGCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTATCAGACCATCTTTGGTAAAACACCCGTAGGCGTTGCGTTAGCTGCAAAACAATATCATATTCCTGTCATCGCGATTTG  >  CP000730/2557255‑2557531                                                                                                                                           |                                                                                                                                           ataagataaAAATGTGCACAGGAAAGTCCGTTAATCAAATACCAGGTTCTGGTGCAGCTGGCGGTATGGGCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGAt                                                                                                                                           >  1:396165/1‑140 (MQ=255) ataagataaAAATGTGCACAGGAAAGTCCGTTAATCAAATACCAGGTTCTGGTGCAGCTGGCGGTATGGGCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGAt                                                                                                                                           <  2:41052/140‑1 (MQ=255)    agataaAAATGTGCACAGGAAAGTCCGTTAAGCAAATACCAGGTTCTGGTGCAGCTGGCGGTATGGGCGCAGCATTATTAGCGTTTTTTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGAtttt                                                                                                                                        <  2:189279/140‑1 (MQ=255)    agataaAAATGGGCCCAGTAGAGTGCGTTAATCAAATGCCAGGTTCTGGTGCAGCTGTCGGTATGGGCTCAGCATTTTTATCTTTTTGTGACACAACTTTAACAAAGGTTATTGAAGTCGTCTTTGATATTACAGAtttt                                                                                                                                        <  2:269546/140‑1 (MQ=255)      cgaaaaaCTTGCACATGACAGTCCGTGAAGCAAATACCGGGTTCTGGTGCAGCCGTCTGTATGGGCCCAGCGTGATTAGCGGTCTGTTAGACTACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATTTcca                                                                                                                                      <  2:19030/138‑1 (MQ=255)      ataaAAATGTGCACAGGAAAGTCCGTTAATCAAATACCAGGTTCTGGTGCAGCTGGCGGTATGGGCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGCttttaa                                                                                                                                      >  2:31924/1‑138 (MQ=255)        aaaaaTGTGCACAGGAAAGTCCGTTAATCAAATACCAGGTTCTGGTGCAGCTGGCGGTATGGTCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGGTCTtcatc                                                                                                                                    <  2:593297/140‑1 (MQ=255)         aaaaTGTGCACAGGAAAGTCCGTTAATCAAATACCAAGTTCTGGTGCAGCTGGCGGTATGGGCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAAGTTTtcatca                                                                                                                                   >  2:439046/1‑140 (MQ=255)          aaaTGTGCACAGGAAAGTCCGTTAATCAAATACCAGGTTCTGGTGCAGCTGGCGGTATGGGCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGCCATTACAGATTTTCATCaa                                                                                                                                  <  1:522844/140‑1 (MQ=255)          aaaGGTGCAAAGGAAAGTCCGTTAATCAAATACCAGGTTCTGGTGCAGCTGGCGGTATGGGCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATTTTCATCaa                                                                                                                                  <  2:10900/140‑1 (MQ=255)               tgCACAGGAAAGTCCGTTAATCAAATACCAGGTTCTGGTGCAGCTGGCGGTATGGGCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATTTGCATCAAAGAAt                                                                                                                             >  1:582382/1‑140 (MQ=255)                        aaGTCCGTTAATCAAATACCAGGTTCTGGTGCAGCTGGCGGTATGGGCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATCTTCATCAAAGAATTAAAGATGc                                                                                                                    <  2:486932/140‑1 (MQ=255)                           accGTTAATCAAACACCAGGTTATGGTCCAGCTGGCGGTATGGGCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATTTTCATCAAAGAATTAAAGATGCata                                                                                                                 <  2:1820/139‑3 (MQ=255)                             cGTTAATCCACTACCCGGTTCTGGTGCCGCTGGCGGTCAGGGCGCAACACTGTACCCTTTTTTTGAGACAACTTTAACAAAATGTATTGATGTTGTCTTTGACATTACAGGTTTTCATCAAAGAATTAAAGATGCAGAcc                                                                                                               <  2:303128/140‑1 (MQ=255)                                           cAGGATCTGGTGCAGCTGGTGGGATGGGCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAGAAGGGATTGATGTCGTCTTTGACATGACAGATTTTCATCAAAGAAGTAAAGATGCCGACCTCGCTCTTACTGga                                                                                                 >  2:312221/1‑140 (MQ=255)                                            acacgttGGTGCAGCTGGCGGTATGGGCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTTgag                                                                                                >  2:336046/7‑140 (MQ=255)                                            aGGTTCTGGTGCAGATGGCGGTATGGGCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGACGTCTTTGACATGACAGGTTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGgag                                                                                                >  2:456009/1‑140 (MQ=255)                                             gtttCTCGGGCAGCTGGTGGTATGGGAGCAGCATTATTAGCGGTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGgaga                                                                                               <  2:506524/138‑1 (MQ=255)                                                   ggTGCAGCTGGCGGTATGGGCGGAGCATTATTAGCGTATTGTGAGACAACTTTAACAAAAGGTATTGAGGTCGGCTGTGCCCTTACAGATTTTCGTCAAAGAATTAAAGATGCAGACCTCGTCATTACTGGAgacggacg                                                                                         >  2:400615/1‑140 (MQ=255)                                                     gggaggtggtggTGTGGGCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATTTGCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCa                                                                                       <  2:47332/134‑1 (MQ=255)                                                        aGCTGGCGGTATGGGCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGGTTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATgg                                                                                    <  1:391731/140‑1 (MQ=255)                                                          ttGGCGGGTTGGGCTCATCATTATTAGCGTTTTGTGAGATAACTTTAACAAAAGGTATTTATGGCGTCTTTGACATTACAGATTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGAt                                                                                  <  2:347643/139‑1 (MQ=255)                                                          cTGGCGGTATGGGCTCAGTATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGAt                                                                                  <  2:380691/140‑1 (MQ=255)                                                           tGGCGGTATGGGCGCAGCATTATTTGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGAtt                                                                                 <  2:344221/140‑1 (MQ=255)                                                           tGGCGGTATGGGCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGCTGTCGTCTTTGACATTACAGATTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGAtt                                                                                 >  2:456407/1‑140 (MQ=255)                                                            ggCGGTATGGGCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGGTTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTa                                                                                >  1:52277/1‑140 (MQ=255)                                                            ggCGGTATGGGCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTa                                                                                >  2:562414/1‑140 (MQ=255)                                                             gCGGTATGGGCTCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTAt                                                                               <  1:309627/140‑1 (MQ=255)                                                              cGGTATGGGCGCAGCATTATTAGCGTTCTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTATc                                                                              <  1:636869/140‑1 (MQ=255)                                                                  aggggCGCAGCATTATTAGCTTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATCTTCACCCCCGACGGAAAGATGCAGTAATCGGTTTTACTGGAGAAGGACGCATGGATTAGCAGAc                                                                          <  2:469960/138‑1 (MQ=255)                                                                     ggtccagaaTTAGTAGCGTTTTGTGAAACAACTTTAACAAAAGGTATTGAGGTCGTCTTTTACATTACAGGTTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTATCAGACCAt                                                                       <  1:281698/136‑1 (MQ=255)                                                                             attattAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTATCAGACCATCTTTGGTa                                                               <  2:156276/140‑1 (MQ=255)                                                                              ttattaGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGCCATTACAGATTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTATCCGACCATCTTTGGTac                                                              >  2:567411/1‑139 (MQ=255)                                                                               tattaGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGCATATCAGAACATCTTTGGTaaa                                                             >  2:44867/1‑140 (MQ=255)                                                                                atgaGCGTTTTGTGAGACAACTTTAACAACAGGTATTGATGTCGTCTTTGACATGACAGCTTTTCGTCAAAGCATTAAAGATGCATCCCTCGTTATTACCGGAGAAGGACGCATGGATTATCAGACCATCTTAGGTaaaa                                                            <  2:422399/137‑1 (MQ=255)                                                                                      gTTTTGTGAAACAACTTTAACAAAAGGTATTGAGGTCGTCTTTGACAATACAGGTTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTATCAGACCATCTTTGGTAAAACACCCg                                                      >  2:427771/1‑140 (MQ=255)                                                                                       ttttGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATTTTCATCAAAGAATTAAAGATGCGGACCTCGTTATTACTGGAGAAGGACGCATGGATTATCAGACCATCTTTGGTAAAACACCCGt                                                     >  2:537182/1‑140 (MQ=255)                                                                                             gagaCAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGGTTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTATCAGACCATCTTTGGTAAAACACCCGTAGgcgt                                               >  1:37281/1‑140 (MQ=255)                                                                                                  aaCTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTATCAGACCATCTTTGGTACAACACCCGTAGgcgttgcgt                                          <  1:420967/140‑1 (MQ=255)                                                                                                     tttAACAAAAGTTATTGTTGTCGTCTTTGACATTACTGGTTTTCATCTAATAATTGAAGATGTAGACGTCGTTATTACTGGAGAAGGACGCATGGATTGTCCGAGCAGCGTTGTTAAACCACCCGTAGtcgttgcttttt                                       <  2:172100/140‑3 (MQ=255)                                                                                                      ttAACAAAAGGGATTGAGGGGGTCTTTGACATTACAGATCTGCAGCACTTAATTAAAGACCCAGACCTCGTTATCCCTGGAGAAGGACGCAGGTATTATCACACCATCTTTTGTAAAACACCCGTAGGCGTTGCGTTAGc                                      <  2:221206/140‑1 (MQ=255)                                                                                                         aCAAAAGGGATTGATGTCGTCTTTGACATTACAGATTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTATCAGACCATCTTTGGTAAAACACCCGTAGGCGTTGCGTTAGCTGc                                   <  2:396165/140‑1 (MQ=255)                                                                                                                  aTTGATGTAGTCTTTGACATTACAGGTTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCAAGGATTACCAGGCCATATTTGGTAAAACACCCGTAAGCGTTGCGTTAgtccccaaacaagt                          >  2:10111/1‑127 (MQ=255)                                                                                                                      aTGTCGTCTTTGACATTACAGGTTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTCCTGGAGAAGGACGCATGGATTATCAGACCATCTTTGGTAAAACACCCGTAGGCGTTGCGTTAGCTGCAAAACAATATCat                      <  2:158705/140‑1 (MQ=255)                                                                                                                         tcgtcTTTGACATTTTTGATTTTCATCAAAGATTTTAAGCTTCAGACCTCGTTATTACTGTAGAAGGACGCATGGATTATCAGACCTTTTTTGGTTTAACACCCGTAGGCGTTGCGTTAGCTGCAAAACAATATCATAtt                   <  2:454398/140‑1 (MQ=255)                                                                                                                            tcTTTGACATTACAGGTTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTATCAGACCATCTTTGGTAAAACACCCGTAGGCGTTCCGTTAGCTGCAAACCAATATCATATTcat                >  1:31304/1‑138 (MQ=255)                                                                                                                               ttGACATTACAGGTTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGAATGGATTATCAGACTTTCTTTGGTAAAACACCCGTAGGCGTTGCGTTAGCTGCAAAACAATATCATATTCCTggc             >  2:401796/1‑138 (MQ=255)                                                                                                                                tGACATTACAGATTTCCAGCAATGAATTAAAGATGCATATCTCGTTATTACTGGAGAAGGACGCATGGATTATCAGACCATCTTTGTTAAAACACCCGTAGGCGTTGCGTTAGCTGCAAAACAATATCATATTCCTGTCa            <  1:563525/140‑1 (MQ=255)                                                                                                                                 gACATTACAGATTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTATCAGACCATCTTTGGTAAAACACCCGTAGGCGTTGCGTTAGCTGCAAAACAATATCATATTCCTGTCAt           <  1:562414/140‑1 (MQ=255)                                                                                                                                  aCATTACAGGTTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTATCAGACCATCTTTGGTAAAACACCCGTAGGCGTTGCGTTAGCTGCAAAACAATATCATATTCCTGTCATc          <  1:105528/140‑1 (MQ=255)                                                                                                                                   cATTACAGGTTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTATCAGACCATCTTTGGTAAAACACCCGTAGGCGTTGCGTTAGCTGCAAAACAATATCATATTCCTGTCATcg         <  1:389069/140‑1 (MQ=255)                                                                                                                                    atgaCAGATTTTCATCAAAGTATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTATCAGACCATCTTTGGTAAAACACCCGTAGGCGTTGCGTTAGCTGCAAAACAGTATCATATTCCTGTCATcgc        <  1:169302/137‑1 (MQ=255)                                                                                                                                        cAGATTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTATCAGACCATCTTTGGTAAAACACCCGTAGGCGTTGCGTTAGCTGCAAAACAATATCATATTCCTGTCATCGCGAtt    <  2:176196/140‑1 (MQ=255)                                                                                                                                          gATTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTATCAGACCATCTTTGGTAAAACACCCGTAGGCGTTGCGTTAGCTGCAAAACAATATCATATTCCTGTCATCGCGCttgt  >  2:318553/1‑138 (MQ=255)                                                                                                                                           |                                                                                                                                           ATAAGATAAAAATGTGCACAGGAAAGTCCGTTAATCAAATACCAGGTTCTGGTGCAGCTGGCGGTATGGGCGCAGCATTATTAGCGTTTTGTGAGACAACTTTAACAAAAGGTATTGATGTCGTCTTTGACATTACAGATTTTCATCAAAGAATTAAAGATGCAGACCTCGTTATTACTGGAGAAGGACGCATGGATTATCAGACCATCTTTGGTAAAACACCCGTAGGCGTTGCGTTAGCTGCAAAACAATATCATATTCCTGTCATCGCGATTTG  >  CP000730/2557255‑2557531

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑