Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 76,180 C→T 34.9% intergenic (+238/‑896) USA300HOU_0072 → / → USA300HOU_0075 universal stress protein/lysophospholipase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP00073076,1800CT34.9% 67.7 / 37.2 53intergenic (+238/‑896)USA300HOU_0072/USA300HOU_0075universal stress protein/lysophospholipase
Reads supporting (aligned to +/- strand):  ref base C (17/16);  new base T (6/11);  total (24/29)
Fisher's exact test for biased strand distribution p-value = 3.72e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.56e-01

GAATTTAATATAACTAATATTGCTGCACCTGTATCACTTAGAACAGCTAACCAAAGTGTTAGTAATCCAGGGAATACTAACACAAAGGCAATTAATTTAATAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCCGTTGGCTACTATCTAAGATATGCATTGAGTTATCGTGATATATCTGAAATA  >  CP000730/76041‑76316
                                                                                                                                           |                                                                                                                                        
gAATTTAATATAACTAATATTGCTGCACCTGTATCACTTAGAACAGCTAACCAAAGTGTTAGTAATCCAGGGAATACTAACACAAAGGCAATTAATTTAATAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCt                                                                                                                                         >  1:289370/1‑141 (MQ=255)
                    tgctgcACCTGTATCACTTAGAACAGCTAACCAAAGTGTTAGTAATCCAGGGAATACTAACACAAAGGCAATTAATTTAATAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACaaaa                                                                                                                     >  2:232084/1‑141 (MQ=255)
                    tgctgcACCTGTATCACTTAGAACAGCTAACCAAAGTGTTAGTAATCCAGGGAATACTAACACAAAGGCAATTAATTTAATAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACaaaa                                                                                                                     >  2:210103/1‑141 (MQ=255)
                          aCCTGTATCACTTAGAACAGCTAACCAAAGTGTTAGTAATCCAGGGAATACTAACACAAAGGCAATTAATTTAATAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGt                                                                                                               <  1:142585/141‑1 (MQ=255)
                           ccTGTATCACTTAGAACAGCTAACCAAAGTGTTAGTAATCCAGGGAATACTAACACAAAGGCAATTAATTTAATAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGtc                                                                                                              >  1:104167/1‑141 (MQ=255)
                           ccTGTATCACTTAGAACAGCTAACCAAAGTGTTAGTAATCCAGGGAATACTAACACAAAGGCAATTAATTTAATAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGtc                                                                                                              >  1:104872/1‑141 (MQ=255)
                             tGTATCAATTAGAACAGAAAAAAAAAGAGAAAGTAATCCATGTAATACTAACACAAAGGAAATTAATTTAATAATTATAGCAAAATATAGGTTCTGTTGCAATGTTGTATCTATAGTAAAAAAAAAAAAAAAAGGAGtctt                                                                                                            <  2:109531/141‑1 (MQ=255)
                                       aGAACAGCTAACCAAAGTGTTAGTAATCCAGGGAATACTAACACAAAGGCAATTAATTTAATAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAAc                                                                                                  <  1:266315/141‑1 (MQ=255)
                                         aaCAGCTAACCAAAGTGTTAGTAATCCAGGGAATACTAACACAAAGGCAATTAATTTAATAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTa                                                                                                <  2:294881/141‑1 (MQ=255)
                                             gCTAACCAAAGTGTTAGTAATCCAGGGAATACTAACACAAAGGCAATTAATTTAATAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTc                                                                                            <  1:264321/141‑1 (MQ=255)
                                                    aaaCTGTTAGTAATCCAGGGAATACTAACACAAAGGCAATTAATTTAATAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGAtata                                                                                     <  2:181844/141‑1 (MQ=255)
                                                         gtTAGTAATCCAGGGAATACTAACACAAAGGCAATTAATTTAATAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACaa                                                                                <  1:177789/141‑1 (MQ=255)
                                                             gTAATCCAGGGAATACGAACACAAAGGCAATTTATTTAATAATTAGAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATGATAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTa                                                                            <  2:275417/141‑1 (MQ=21)
                                                                       gAATACTAACACAAAGGCAATTAATTTAATAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGt                                                                  >  1:272632/1‑141 (MQ=255)
                                                                        aaTACTAACACAAAGGCAATTAATTTAATAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGtt                                                                 >  2:197693/1‑141 (MQ=255)
                                                                        aaTACTAACACAAAGGCAATTAATTTAATAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGtt                                                                 <  2:248620/141‑1 (MQ=255)
                                                                              aaCACAAACGCAATTAATTTAATTATTAACGCAATATATAGGTTATGTTGAAAAGTATAATCTAAAGTATAATTTTAACTAAAAGGAGTCTTCCGTATGCACTAGTTCAGATATAAACAATTTAACAAGAATGTAAtacct                                                           >  2:150105/1‑137 (MQ=17)
                                                                               acacAAAGGCAATTAATTTAATAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTAAACAAAAAGGAGTCTTCTGTATGAACTATTTCCGATATAAACAATTTAACAAGGATGTTATCAcgg                                                          <  2:217671/141‑3 (MQ=255)
                                                                                 acaAAGGCAATTAATATAATAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTa                                                        <  1:233074/141‑1 (MQ=255)
                                                                                  caAAGGCAATTAATTTAATAATTATAGCAAAATATAGATTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAg                                                       <  1:288107/141‑1 (MQ=255)
                                                                                        cAATTAATTTAATAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCCGTTg                                                 >  2:103729/1‑141 (MQ=255)
                                                                                         aatgaagtTAACAACGATAGAAAAAAAAAGGTTCTTTTGCAAAGTTGAATCTATAGTAAAAAAAAAAAAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCCGTTgg                                                <  2:196424/141‑1 (MQ=11)
                                                                                               tttaatAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCCATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCCGTTGGctacta                                          >  1:116791/1‑141 (MQ=255)
                                                                                                  aataatTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCCGTTGGCTACTATCt                                       >  2:335496/1‑141 (MQ=255)
                                                                                                   ataatTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCCGTTGGCTACTATCTa                                      >  1:83984/1‑141 (MQ=255)
                                                                                                             cagttaggaGGTTCTGTTGCAAAGTTGAATTTATAATATAATTTTAACAACAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCCGTTGGCTACTATCTAAGATATGCAt                            >  2:179564/9‑141 (MQ=11)
                                                                                                             cagttaggaGGTTCTGTTGCAAAGTTGAATTTATAATATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCCGTTGGCTACTATCTAAGATATGCAt                            <  2:219058/133‑1 (MQ=255)
                                                                                                             cagttaggaGGTTCTGTTGCAAAGTTGAATTTATAATATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAAAAAGGATGTTAGCACTGTAGCCGTTGGCTACTATCTAAGATATGCAt                            <  1:358391/133‑1 (MQ=11)
                                                                                                              gtaaatgaGGTTCTGTTGCAAAGTTGAATTTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCTGTTGGCTACTATCTAAGATATGCAtt                           <  2:237635/134‑1 (MQ=255)
                                                                                                              gtaaatgaGGTTCTGTTGCAAAGTTGAATTTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCTGTTGCCTACCATCTAAGATATGCAtt                           <  1:191025/134‑1 (MQ=11)
                                                                                                              gtaaatgaGGTTCTGTTGCAAAGTTGAATTTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATAGAAACAATTTAACAAGGATGTTATCACTGTAGCTGTTGGCTACTATCTAAGATATGCAtt                           <  1:51004/134‑1 (MQ=11)
                                                                                                               gttagaaGGTTCTTTTGCAAAGTTGAATTTATAATATAATTAAAAACAAAAGTAATCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCCGTTGGCTACTATCTAAGATATGCATTg                          <  2:145906/135‑1 (MQ=11)
                                                                                                               aaaatgaGGTTCTGTTGCAAAGTTGAATGTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCTGTTGGCTACTATCTAAGATATGCATTg                          <  2:165349/135‑1 (MQ=255)
                                                                                                               aaaTATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCCGTTGGCTACTATCTAAGATATGCATTg                          <  1:330115/141‑1 (MQ=255)
                                                                                                                aaatgaGGTTCTGTTGCAAAGTTGAATTTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCTGTTGGCTACTATCTAAGATATGCATTGa                         >  1:305998/6‑141 (MQ=9)
                                                                                                                aaTAGAGGTTCTGGTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGCGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCCGTTGGCTACTATCTAAGATATGCATTGa                         <  2:262436/141‑1 (MQ=255)
                                                                                                                 aatgaGGTTCTGTTGCAAAGTTGAATTTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCTGTTGGCTACTATCTAAGATATGCATTGAg                        <  1:333272/137‑1 (MQ=2)
                                                                                                                 aatgaGGTTCTGTTGCAAAGTTGAATTTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCTGTTGGCTACTATCTAAGATATGCATTGAg                        <  2:171997/137‑1 (MQ=2)
                                                                                                                  aggaGGTTCTTTTGCAAAGGTGAATTTATAATATAATTATAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCCGTTGGCTACTATCTAAGATATGCATTGAgc                       <  2:365222/138‑2 (MQ=11)
                                                                                                                   tgaGGTTCTGTTGCAAAGTTGCATTTATAGTATAATTTTAAACAATAGAAGAGTTCCGTACAAACTATTTCAGATATAAACATTTTAACAATGATTTTATCACTGTAGCTGTTGGCTACTATCTAAGATATGCATTGAGtt                      <  2:359269/139‑1 (MQ=11)
                                                                                                                   ataGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAAAAAGGAGGTTATCACTGTAGCCGTTGGCTACTATCTAAGATATGCATTgcggt                      >  1:134857/1‑137 (MQ=255)
                                                                                                                    gaGGTTCTGTTGCAAAGTTGAATTTATAGTATAATTTTAACAAAAAGGCGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCTGTTGGCTACTATCTAAGATATGCATTGAGttt                     >  2:345130/2‑140 (MQ=2)
                                                                                                                    gaGGTTCTGTTGCAAAGTTGAATTTATAATATAATCTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCCGTTGGCTACTATCTAAGATATGCATTGAgctc                     >  2:66066/2‑138 (MQ=255)
                                                                                                                     aGGTTCTGTTGCAAAGTTGAATTTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATTTTGGGCATTTAACAAGGATGTTATCACTGTAGCTGTTGGCTACTATCTAAGATATGCATTGAGTTAt                    >  1:271527/1‑141 (MQ=1)
                                                                                                                     aGGTTCTGTTGCAAAGTTGAATTTATAATATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCCGTTGGCTACTATCTAAGATATGCATTGAGCTAt                    >  1:325511/1‑141 (MQ=0)
                                                                                                                             ttGCAAAGTTGAACGTATATTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTCGCCGTTGGCTACTATCTAAGAGATGCATAGCGCTATCGTGataa            >  2:322340/1‑140 (MQ=11)
                                                                                                                              tGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCCGTTGGCTACTATCTAAGATATGCATTGAGTTATCGTGatata           >  2:300244/1‑141 (MQ=35)
                                                                                                                              tGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCCGTTGGCTACTATCTAAGATATGCATTGAGTTATCGTGatata           >  2:340717/1‑141 (MQ=35)
                                                                                                                                gaaaGTTGAATTTATAATATAATTTTAACAAAAAGGAGTCTTTTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCCGTTGGCTACTATCTAAGATATGCATTGAGCTATCGTGATATATc         <  2:112078/140‑1 (MQ=255)
                                                                                                                                cAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCCGTTGGCTACTATCTAAGATATGCATTGAGTTATCGTGATATATc         >  1:128590/1‑141 (MQ=35)
                                                                                                                                   aGTTGAATGTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGACGTTATCACTGTAGCTGTTGGCTACTATCTAAGATATGCATTGAGTTATCGTGATATATCTGa      <  1:51454/141‑1 (MQ=12)
                                                                                                                                    agtGAATCTATAGTAAAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTGGCCGTTGGCTACTATCTAAGATATGCATTGAGTTATCGTGATATATCTGaa     <  1:290331/139‑1 (MQ=255)
                                                                                                                                       tgttCTGTAGTATAATTTTAACAAAAAGGAGGCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTGTCACTGTAGCCGTTGGCTACTATCTAAGATATGCGTTGAGTTATCGTGATATATCTGAAata  >  2:3970/4‑141 (MQ=11)
                                                                                                                                           |                                                                                                                                        
GAATTTAATATAACTAATATTGCTGCACCTGTATCACTTAGAACAGCTAACCAAAGTGTTAGTAATCCAGGGAATACTAACACAAAGGCAATTAATTTAATAATTATAGCAAAATATAGGTTCTGTTGCAAAGTTGAATCTATAGTATAATTTTAACAAAAAGGAGTCTTCTGTATGAACTATTTCAGATATAAACAATTTAACAAGGATGTTATCACTGTAGCCGTTGGCTACTATCTAAGATATGCATTGAGTTATCGTGATATATCTGAAATA  >  CP000730/76041‑76316

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: