Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	76,969	G→A	100%	intergenic (+1027/‑107)	USA300HOU_0072 → / → USA300HOU_0075	universal stress protein/lysophospholipase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	76,969	0	G	A	100.0%	174.0 / NA	55	intergenic (+1027/‑107)	USA300HOU_0072/USA300HOU_0075	universal stress protein/lysophospholipase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (30/25);  total (30/25)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

CTTCAGATCTACGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGTCA  >  CP000730/76832‑77102                                                                                                                                          |                                                                                                                                      ttcgaGATCTACGGGTTTGTGCCATGCCACGAAGTTAGCATCATGCTAGCAAGTTAAGCGAATACTGACATGATAAATTAGTGGTTAGCTATAGTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGt                                                                                                                                    <  2:57071/137‑1 (MQ=14) ctTCAGATCTACGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGt                                                                                                                                    >  1:395702/1‑141 (MQ=255) ctTCAGATCTACGGATCTGCGCGATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACTTGGGCTTAAAAGGt                                                                                                                                    <  2:515717/141‑1 (MQ=14)   tcagtgcTACGGATCTTCGCCATGGCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAACCATGGTCTTAAAAGGTTa                                                                                                                                  <  2:237672/135‑1 (MQ=14)           aCGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTtatat                                                                                                                          <  2:336306/141‑1 (MQ=255)                ttttCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTAt                                                                                                                     >  1:31740/1‑141 (MQ=255)                  ttCGCCATGCCGCGAAATTGGCATCATGCTAGCCACTTAAGCGAACACTGCCATGATACATTAGTGGTTAGCTATATTTTTCTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTa                                                                                                                   <  1:18318/141‑1 (MQ=18)                    cGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGCACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACt                                                                                                                 <  1:399810/141‑1 (MQ=255)                           ccaaaaaaTTAGGAGCATGATAGCAAGTTAAACGAACAGTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGTAAAAAAAAAAAAAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACa                                                                                                          <  2:451314/136‑1 (MQ=18)                           ccACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGCCATGATAAATTAGTAGTTAGCTATATTTTTTTACTTTGCAACAGAAACTACATAACACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACa                                                                                                          <  2:193050/141‑1 (MQ=18)                            cACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTGGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACAt                                                                                                         >  1:512398/1‑141 (MQ=255)                                      gCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGt                                                                                               <  2:713184/141‑1 (MQ=255)                                      gCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTAAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGAttttgtt                                                                                               >  1:716900/1‑137 (MQ=255)                                       catcatGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTc                                                                                              >  2:675340/1‑141 (MQ=255)                                       catcatGCTAGCAAGTCAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTc                                                                                              >  1:388095/1‑141 (MQ=255)                                              cTAGCAAGTTAAGCAAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTAGTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAAtt                                                                                       <  2:441378/141‑1 (MQ=255)                                               tAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAACAATTa                                                                                      >  2:470520/1‑141 (MQ=255)                                                aGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTACAAACATTGACTTGGGTCAAAAATTAg                                                                                     >  2:242184/1‑141 (MQ=255)                                                      ttAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTAt                                                                               <  2:119020/141‑1 (MQ=255)                                                      ttAAGCGAACACTGAAATGATAAATTAGTGGTTAGGTATAGTTAATTAAAAAATAACAGAACAGAGAAAAAAAATGGGCACAAAATGTTAATCTAGATAGTATTACTGCAAACATTGGTTTGGGTCAAAAAtaaaaaaaaa                                                                               <  2:719075/141‑10 (MQ=255)                                                      ttAAGCGAACAATGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGATCCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATGTGGGTCAAAAATTAGGGGTAt                                                                               <  1:391544/141‑1 (MQ=255)                                                      tcaagtcaaCACAGACATGATAAATTAATGGTTAGTTATATTTTTATACATTACAACAAAACCAATAAAAAACATGGGCTTAAAAGGTTAATTCATATAGAATTAGTTCAAACATTGATTTGTCTCAAATATTaaaaaaaa                                                                               <  2:736789/134‑8 (MQ=255)                                                         aGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTaa                                                                            <  1:521239/141‑1 (MQ=255)                                                              acacTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTaaaaaaa                                                                       <  1:720226/141‑1 (MQ=255)                                                                     cATTATAAATTAGTGGTAAGCAATATTTATTAACTTTGCAACAGAATCTATAAAAAACATGGGCTTAAAAGGTTAATTCATATAGTATTTCTGTAAACATTGATTTGTGTCAAAAATTAAAAAAAAAAAAAAAatgaatga                                                                <  2:433805/141‑1 (MQ=255)                                                                     cATGATAAATTAGTGGTTAGCTATATTTTTTCAGTTTGGCCGTTATCCTATGAAAAACGTGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGAATTAAAAAAatgaatga                                                                >  1:363748/1‑141 (MQ=255)                                                                      aTGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAAtgaatgaa                                                               >  2:186731/1‑141 (MQ=255)                                                                         ataaataaGTGGTTATCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCa                                                            <  2:436711/141‑1 (MQ=255)                                                                         agaaaTGAGTGGTTAGCTATACTTTTTTACTTTTCAACAGAAAGTACAAAAAAAATGTGCATAAAAGGTTAATTTATATAATATTATGGCAAATATTGATTTGGGTCAAAAATTAGGGGTATAAAAAAAATGAATGAATCa                                                            <  2:568528/139‑1 (MQ=255)                                                                           aaaTTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATa                                                          >  1:369513/1‑141 (MQ=255)                                                                           aaaTTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATa                                                          >  1:286845/1‑141 (MQ=255)                                                                                  tGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTAt                                                   >  2:611855/1‑141 (MQ=255)                                                                                   ggTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTAta                                                  >  2:741348/1‑140 (MQ=255)                                                                                           atatTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGGATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGAt                                          >  2:749816/1‑141 (MQ=255)                                                                                                tttttACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATGTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGgag                                     >  1:484802/1‑141 (MQ=255)                                                                                                      cTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTa                               >  2:422004/1‑141 (MQ=255)                                                                                                          gCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAAt                           >  1:26211/1‑141 (MQ=255)                                                                                                           cAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATg                          <  1:13669/141‑1 (MQ=255)                                                                                                              cAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGGGAGGTTAAAATGCAt                       <  1:566515/141‑1 (MQ=255)                                                                                                              cAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCAt                       <  1:27701/141‑1 (MQ=255)                                                                                                                gAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATta                     >  2:498244/1‑141 (MQ=255)                                                                                                                gAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATGGAATTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATta                     >  2:5478/1‑141 (MQ=255)                                                                                                                 aaCCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGGGGTTAAAATGCATtaa                    >  1:186744/1‑140 (MQ=255)                                                                                                                    cTATAAAAAAGAGGGGCTTAAAAGGTTGATATATATAGTATTACTGCAAACATTAAAAAAAAAAAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATtatata                 <  2:174955/141‑1 (MQ=255)                                                                                                                     tataAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAGAACAATTCTCTTTGCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTAGATaa                >  1:714327/1‑141 (MQ=255)                                                                                                                       taAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATaaaa              >  1:523172/1‑141 (MQ=255)                                                                                                                            aaCATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTAt         <  1:426087/141‑1 (MQ=255)                                                                                                                             aCATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATAATACTTTTATCAAGCTGATTGGCGAGGTTAAAATGCATTATATAAAATTTAtt        >  1:530640/1‑141 (MQ=255)                                                                                                                               aTGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGa      >  1:263414/1‑141 (MQ=255)                                                                                                                                tGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTAGTTTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAg     >  1:593619/1‑141 (MQ=255)                                                                                                                                 gggCTTAAAATGTTAATTTATATAGTATTACTGTAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATTAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGt    <  2:716900/141‑1 (MQ=255)                                                                                                                                 gggCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATGAGATTTATTGAGt    >  1:89475/1‑141 (MQ=255)                                                                                                                                 gggCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGt    >  1:23145/1‑141 (MQ=255)                                                                                                                                 gggCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGATCAAAAAATAGGGTTATTAAAAAAATGACTGATTTAAAAGAGGAGCAAGCAGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGt    >  2:731789/1‑141 (MQ=255)                                                                                                                                   gCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGCTTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGAATTATATAAAATTTATTGAGTCa  >  2:491775/1‑141 (MQ=255)                                                                                                                                          |                                                                                                                                      CTTCAGATCTACGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGTCA  >  CP000730/76832‑77102

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑