Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913_3_pae_pgi 4,088,091 G→C 10.0% intergenic (+34/+16) yiiG → / ← frvR DUF3829 family lipoprotein/putative frv operon regulator; contains a PTS EIIA domain

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913_3_pae_pgi4,088,0910GC10.0% 122.3 / 5.4 48intergenic (+34/+16)yiiG/frvRDUF3829 family lipoprotein/putative frv operon regulator; contains a PTS EIIA domain
Reads supporting (aligned to +/- strand):  ref base G (19/23);  new base C (2/3);  total (21/27)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.02e-01

TAAAGAGCAACTTCAGGACGCAAACTCAAGCTGGATGGTCGAAGACTCTTTCCCGAGAGCATTACGCGAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGG  >  NC_000913_3_pae_pgi/4087949‑4088234
                                                                                                                                              |                                                                                                                                               
tAAAGAGCAACTTCAGGACGCAAACTCAAGCTGGATGCTCGAAGACTCTTTCCCGAGAGCATTACGCGAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAAGGCAGTGTCGGACGCGGCGCATc                                                                                                                                           >  2:237682/1‑149 (MQ=255)
   agagTAACTTCAGGACGCAAACTCAAGCTGGATGGACGAAGACTCTTTCCCGAGAGCATTACGCGAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGa                                                                                                                                        <  1:46641/149‑1 (MQ=255)
   agagCAACTTCAGGACGCAAACTCAAGCTGGATGGTCGAAGACTCTTTCCCGAGAGCATTACGCGAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGa                                                                                                                                        <  2:838389/149‑1 (MQ=255)
     agCAACTTCAGGACGCAAACTCAAGCTGGATGGTCGAAGACTCTTTCCCGAGAGCATTACGCGAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGCCGCATCCGaca                                                                                                                                      <  2:58600/149‑1 (MQ=255)
     agCAACTTCAGGACGCAAACTCAAGCTGGATGGTCGAAGACTCTTTCCCGAGAGCATTACGCGAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGCCGCATCCGaca                                                                                                                                      <  2:563284/149‑1 (MQ=255)
     agCAACTTCAGGACGCAAACTCAAGCTGGATGGTCGAAGACTCTTTCCCGAGAGCATTACGCGAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGCCGCATCCGaca                                                                                                                                      >  1:58600/1‑149 (MQ=255)
     agCAACTTCAGGACGCAAACTCAAGCTGGATGGTCGAAGACTCTTTCCCGAGAGCATTACGCGAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGCCGCATCCGaca                                                                                                                                      >  1:563284/1‑149 (MQ=255)
          cTTCAGGACGCAAACTCAAGCTGGTTGGTCGAAGACTCTTTCCCGAGAGCATTACGCGAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTCTTTCCGGATGCAGTGTCGGATGCGGCGCATCCGACACAGtt                                                                                                                                 <  1:240320/149‑1 (MQ=255)
          cTTCAGGACGCAAACTCAAGCTGGATGGTCGAAGACTCTTTCCCGAGAGCATTACGCGAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGGCACCGtt                                                                                                                                 >  2:828268/1‑149 (MQ=255)
            tCAGGACGCAAACTCAAGCTGGATGGTCGAAGACTCTTTCCCGAGAGCATTACGCGAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCa                                                                                                                               <  2:808932/149‑1 (MQ=255)
               ggACGCAAACTCAAGCTGGATGGTCGAAGACTCTTTCCCGAGAGCATTACGCGAGTACAACGAAATGGTTGATGCCTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCAccc                                                                                                                            >  2:415920/1‑149 (MQ=255)
                           aaGCTGGATGGTCGAAGACTCTTTCCCGAGAGCATTACGCGAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTaa                                                                                                                >  1:720206/1‑149 (MQ=255)
                              cTGGATGGTCGAAGACTCTTTCCCGAGAGCATTACGCGAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTc                                                                                                             <  1:769249/149‑1 (MQ=255)
                                    gttCGAAGACCCTTTCCCGAGAGCATCACGCGAGTACAACGAAATAGCTGATGACTATAATAGCCTGCGTTAAACGTTTCTCATGATAAATGCAGTGTCGGATGCCGCGCATCCGACACATTTCACCCCTTGTTAAGTAACTCCATaaa                                                                                                       <  2:823838/147‑1 (MQ=255)
                                      tCGAAGACTCTTTCCCGAGAGCATGACGCAAGTATCGAGATAAAGTTGATGACTATAAAAACCGGCGTTAAACGTTGTTGATGATAAAGCCAGTATCCACTGCGGCGCATCCAACACAATTCACCCCTTGTGCAGTACCTcccgacacg                                                                                                     >  2:674076/1‑142 (MQ=255)
                                        gAAGACTCTTTCCCGAGAGCATTACGCGAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGcc                                                                                                   >  1:104871/1‑149 (MQ=255)
                                          ataCTCGTTTCCGAGAGCATTACGCGAGTACAACGAAGTGGTTGATGACTATAATAGCCTGCGTGAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTc                                                                                                 <  1:504370/147‑1 (MQ=255)
                                                  gcccGAGAGCATTACGCGAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGCCGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTg                                                                                         <  1:194844/148‑1 (MQ=255)
                                                   cccGAGAGCATTACGCGAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGt                                                                                        <  1:602224/149‑1 (MQ=255)
                                                            aTTACGCGAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGc                                                                               >  1:436968/1‑149 (MQ=255)
                                                                  cgAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACt                                                                                                              <  2:640796/112‑1 (MQ=255)
                                                                  cgAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACt                                                                                                              >  1:640796/1‑112 (MQ=255)
                                                                      tACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTcc                                                                     >  1:91694/1‑149 (MQ=255)
                                                                      tACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTcc                                                                     <  1:932215/149‑1 (MQ=255)
                                                                      tACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTcc                                                                     >  1:13673/1‑149 (MQ=255)
                                                                      tACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCAGCaataaccccc                                                                     >  1:14031/1‑144 (MQ=255)
                                                                      tACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAAAGCCGCAGTCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTcc                                                                     >  1:693842/1‑149 (MQ=255)
                                                                            gAAATGGTGGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAATTGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGa                                                               <  1:332951/149‑1 (MQ=255)
                                                                              aaTGGTTGATGACTATAATGGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCTGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCCGAtc                                                             <  1:953959/149‑2 (MQ=255)
                                                                                  gTTGATGAACATAATAGCAGGCGGTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGa                                                         <  1:265556/149‑1 (MQ=255)
                                                                                   ttGATGACTATAATAGCCTACGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCACTAACCTCCGCCGGATCCTGac                                                        >  2:670117/1‑149 (MQ=255)
                                                                                       gtacttaaataGTCTGCGTTAAAAGTTTTTGATGCTAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTGGTGAAGTAACGCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACaa                                                    <  2:228486/142‑1 (MQ=255)
                                                                                           tataATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAAc                                                                                                               >  1:149593/1‑86 (MQ=255)
                                                                                           tataATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAAc                                                                                                               <  2:149593/86‑1 (MQ=255)
                                                                                                 aGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGAAACAATATGCTTGcc                                          >  1:675839/1‑149 (MQ=255)
                                                                                                      gCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATa                                     <  2:979020/149‑1 (MQ=255)
                                                                                                         ttAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTAATATCCTGTTAACCCGGCAATAATCTCCGCAGGATGCTGACACAATATGCTTGCCAGATAGCt                                  >  1:334231/1‑149 (MQ=255)
                                                                                                             aCGTTTCTGATGATAAACGCAGTGTCGGATGGGGCGCATCCGACACACTTCACACCTTAAGAAGTAATTCCATAAAGTCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAat                              <  2:110161/149‑1 (MQ=255)
                                                                                                               gTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAAAAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAatat                            >  1:418765/1‑149 (MQ=255)
                                                                                                                  tttGATGATAAATGCAGTGTCGGATGCGGCGCATCCGTCACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATAtttt                         <  1:166156/149‑1 (MQ=255)
                                                                                                                    tgatgaTAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTa                       <  1:1005204/149‑1 (MQ=255)
                                                                                                                     gatgatAAATGCAGTGTCGGATGCGTCGCATCAGATACAGTTCACCCCACGAGATTCAAGCCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAg                      <  1:231144/149‑1 (MQ=255)
                                                                                                                        gatAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTc                   >  2:685493/1‑149 (MQ=255)
                                                                                                                          tAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCAt                 <  1:395031/149‑1 (MQ=255)
                                                                                                                               gCAGTGTCGGATGCGCCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGAcgc            <  2:443474/149‑1 (MQ=255)
                                                                                                                                  gtgtCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCa         <  1:415920/149‑1 (MQ=255)
                                                                                                                                       ggATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAACTCATGACGCGCATcggc    >  1:913928/1‑149 (MQ=255)
                                                                                                                                         aTGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATcggcgg  <  2:104871/149‑1 (MQ=255)
                                                                                                                                              |                                                                                                                                               
TAAAGAGCAACTTCAGGACGCAAACTCAAGCTGGATGGTCGAAGACTCTTTCCCGAGAGCATTACGCGAGTACAACGAAATGGTTGATGACTATAATAGCCTGCGTTAAACGTTTTTGATGATAAATGCAGTGTCGGATGCGGCGCATCCGACACAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGG  >  NC_000913_3_pae_pgi/4087949‑4088234

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: ‑