Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 1,463,480 Δ1 bp 13.4% intergenic (+42/‑59) paaK → / → paaX phenylacetyl‑CoA ligase/transcriptional repressor of phenylacetic acid degradation paa operon, phenylacetyl‑CoA inducer

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,463,4800A.13.4% 227.2 / 30.0 67intergenic (+42/‑59)paaK/paaXphenylacetyl‑CoA ligase/transcriptional repressor of phenylacetic acid degradation paa operon, phenylacetyl‑CoA inducer
Reads supporting (aligned to +/- strand):  ref base A (28/30);  new base . (4/5);  total (32/35)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01

TCTCTACCGATGTGATGATCGTTAACTGTGGCAGTATCCCGCGTTCAGAAGGCAAGGCGTGTCGGGTGTTTGATCTGCGCAATATTGTTGGTGCCTGACGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACTTTTATCCAACATGCTGTAAACGCTGTTCCGGTCAGTGGCACATCTTTGATCTC  >  NC_000913/1463341‑1463609
                                                                                                                                           |                                                                                                                                 
tctcTACCGATGTGATGATCGTTAACTGTGGCAGTATCCCGCGTTCAGAAGGCAAGGCGTGTCGGGTGTTTGATCTGCGCAATATTGTTGGTGCCTGACGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTcgatac                                                                                                                           <  2:973960‑M2/148‑7 (MQ=255)
  tctACCGATGTGATGATCGTTAACTGTGGCAGTATCCCGCGTTCAGAAGGCAAGGCGTGTCGGGTGTTTGATCTGCGCAATATTGTTGGTGCCTGACGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGa                                                                                                                         <  1:1008694/148‑1 (MQ=255)
                 atCGTTAACTGTGGCAGTATCCCGCGTTCAGAAGGCAAGGCGTGTCGGGTGTTTGATCTGCGCAATATTGTTGGTGCCTGACGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTc                                                                                                          <  1:973960/148‑1 (MQ=255)
                             ggCAGTATCCCGCGTTCAGAAGGCAAGGCGTGTCGGGTGTTTGATCTGCGCAATATTGTTGGTGCCTGACGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATg                                                                                                              <  4:496530/132‑1 (MQ=255)
                             ggCAGTATCCCGCGTTCAGAAGGCAAGGCGTGTCGGGTGTTTGATCTGCGCAATATTGTTGGTGCCTGACGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATg                                                                                                              >  3:496530/1‑132 (MQ=255)
                               cAGTATCCCGCGTTCAGAAGGCAAGGCGTGTCGGGTGTTTGATCTGCGCAATATTGTTGGTGCCTGACGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCAcaacaa                                                                                            >  1:409625/1‑148 (MQ=255)
                                aGTATCCCGCGTTCAGAAGGCAAGGCGTGTCGGGTGTTTGATCTGCGCAATATTGTTGGTGCCTGACGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAAt                                                                                           >  1:1043294/1‑148 (MQ=255)
                                                     aaggcGTGTCGGGTGTTTGATCTGCGCAATATTGTTGGTGCCTGACGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATg                                                                      <  2:1043294/148‑1 (MQ=255)
                                                           tgtCGGGTGTTTGATCTGCGCAATATTGTTGGTGCCTGACGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTaaa                                                                <  2:409625/148‑1 (MQ=255)
                                                              cGGGTGTTTGATCTGCGCAATATTGTTGGTGCCTGACGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAg                                                                                                                                  <  1:171501/79‑1 (MQ=255)
                                                              cGGGTGTTTGATCTGCGCAATATTGTTGGTGCCTGACGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAg                                                                                                                                  >  2:171501/1‑79 (MQ=255)
                                                                              gcAATATTGTTGGTGCCTGACGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAg                                                                                   >  2:447631/1‑110 (MQ=255)
                                                                              gcAATATTGTTGGTGCCTGACGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAg                                                                                   <  1:447631/110‑1 (MQ=255)
                                                                                               tGACGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTcgatacgtcaggcaccaacaatattgcgcagatcaaacacccgacacgccttgccttctgaacgcgggatactgccacagttaacgatcatcacatcggta                            <  2:396354‑M2/148‑102 (MQ=255)
                                                                                                gACGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTcgatacgtcaggcaccaacaatattgcgcagatcaaacacccgacacgccttgccttctgaacgcgggata                                                          >  3:343372‑M2/1‑46 (MQ=255)
                                                                                                gACGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTcgatacgtcaggcaccaacaatattgcgcagatcaaacacccgacacgccttgccttctgaacgcgggata                                                          <  4:343372‑M2/117‑72 (MQ=255)
                                                                                                 aCGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGa                                                                         >  2:1061698/1‑101 (MQ=255)
                                                                                                 aCGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGa                                                                         <  1:1061698/101‑1 (MQ=255)
                                                                                                         tCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATaa                                                                                         >  4:1056002/1‑77 (MQ=255)
                                                                                                         tCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATaa                                                                                         >  4:1130786/1‑77 (MQ=255)
                                                                                                         tCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATaa                                                                                         <  3:1130786/77‑1 (MQ=255)
                                                                                                         tCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATaa                                                                                         <  3:1056002/77‑1 (MQ=255)
                                                                                                          cTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACt                                                       >  2:159422/1‑110 (MQ=255)
                                                                                                          cTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACt                                                       <  1:159422/110‑1 (MQ=255)
                                                                                                           tGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGA‑‑gatacgtcaggcaccaacaatattgcgcagatcaaacacccgacacgccttgccttctgaacgcgggatactgccacagttaacgatcatcgcatcggtagagatccccaccatc               <  2:1002090‑M2/148‑116 (MQ=255)
                                                                                                            ggCCCTGGTGGGGTAAAGCGCCAGGGCCAGA‑‑gatacgtcaggcaccaacaatattgcgcagatcaaacacccgacacgccttgccttctgaacgcgggatactgccacagttaa                                               <  3:532854‑M2/115‑84 (MQ=255)
                                                                                                            ggCCCTGGTGGGGTAAAGCGCCAGGGCCAGA‑‑gatacgtcaggcaccaacaatattgcgcagatcaaacacccgacacgccttgccttctgaacgcgggatactgccacagttaa                                               >  4:532854‑M2/1‑32 (MQ=255)
                                                                                                             gCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATAc                                                        <  4:523393/106‑1 (MQ=255)
                                                                                                             gCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATAc                                                        >  3:523393/1‑106 (MQ=255)
                                                                                                                cTGGTGGGGTAAAGCGCCAGGGCCAGAAGTcgatacgtcaggcaccaacaatattgcgcagatcaaacacccgacacgccttgccttctgaacgcgggatactgccacagttaacgatcatcacatcggtagagatccccaccatcga           >  1:396354‑M2/1‑30 (MQ=255)
                                                                                                                cTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACt                                                       <  1:974691/104‑1 (MQ=255)
                                                                                                                cTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACt                                                       >  2:974691/1‑104 (MQ=255)
                                                                                                                cTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACTTTTATCCAACATGCTGTAAACGCTGTTCCGGTCAGTGGCACATc           >  1:657789/1‑148 (MQ=255)
                                                                                                                cTGGTGGGGTAAAGCGCCAGGGCCAGA‑‑gatacgtcaggcaccaacaatattgcgcagatcaaacacccgacacgccttgccttctgaacgcgggatactgccacagttaacgatcatcacatcggtagagatcc                       >  1:962068‑M2/1‑28 (MQ=255)
                                                                                                                cTGGTGGGGTAAAGCGCCAGGGCCAGA‑‑gatacgtcaggcaccaacaatattgcgcagatcaaacacccgacacgccttgccttctgaacgcgggatactgccacagttaacgatcatcacatcggtagagatcc                       <  2:962068‑M2/135‑108 (MQ=255)
                                                                                                                cTGGTGGGGTAAAGCGCCAGGGCCAGA‑‑gatacgtcaggcaccaacaatattgcgcagatcaa                                                                                               <  2:468484‑M2/63‑36 (MQ=255)
                                                                                                                cTGGTGGGGTAAAGCGCCAGGGCCAGA‑‑gatacgtcaggcaccaacaatattgcgcagatcaa                                                                                               >  1:468484‑M2/1‑28 (MQ=255)
                                                                                                                 tggtggGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACTTTTATCCAACATGCTGTaaa                                   <  2:690522/123‑1 (MQ=255)
                                                                                                                 tggtggGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACTTTTATCCAACATGCTGTaaa                                   >  1:690522/1‑123 (MQ=255)
                                                                                                                  ggtggGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACTTTTATCCa                                               >  3:702487/1‑110 (MQ=255)
                                                                                                                  ggtggGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACTTTTATCCa                                               <  4:702487/110‑1 (MQ=255)
                                                                                                                  ggtggGGTAAAGCGCCAGGGCCAGA‑‑gatacgtcaggcaccaacaatattgcgcagatcaaacacccgacacgccttgccttctgaacgcgggatactgccacagttaacgatcatcacatcggtagagatccccaccatcgacttaa        <  4:187228‑M2/148‑123 (MQ=255)
                                                                                                                   gtggGGTAAAGCGCCAGGGCCAGA‑‑gatacgtcaggcaccaacaatattgcgcagatcaaacacccgacacgccttgccttctgaacgcgggatactgccacagttaacgatcatcacatcggtagagatccccaccatcgacttaat       >  3:187228‑M2/1‑25 (MQ=255)
                                                                                                                     ggggTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACTTTTATCCAACATGCTGTAAACGCTGTTCCGGTCAGTGGCACATCTTTGa      <  2:657789/148‑1 (MQ=255)
                                                                                                                        gTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACTTTTATCCAACATGCTGTAAACGCTGTTcc                          >  2:949017/1‑125 (MQ=255)
                                                                                                                        gTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACTTTTATCCAACATGCTGTAAACGCTGTTcc                          <  1:949017/125‑1 (MQ=255)
                                                                                                                         tAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACt                                                              <  2:474432/88‑1 (MQ=255)
                                                                                                                         tAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACt                                                              >  1:474432/1‑88 (MQ=255)
                                                                                                                         tAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACTTTTATCCAACATGCTGTAAACGCTGTTCCGGTCAg                    <  4:961670/130‑1 (MQ=255)
                                                                                                                         tAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACTTTTATCCAACATGCTGTAAACGCTGTTCCGGTCAg                    >  3:961670/1‑130 (MQ=255)
                                                                                                                         tAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACTTTTATCCAACATGCTGTAAACGCTGTTCCGGTCAGTGGCACATCTTTGAtctc  >  1:291769/1‑148 (MQ=255)
                                                                                                                          aaaGCGCCAGGGCTAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACTTTTATCCAACATGCTGTaaa                                   >  3:77455/1‑114 (MQ=255)
                                                                                                                          aaaGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACTTTTATCCAACATGCTGTaaa                                   <  4:77455/114‑1 (MQ=255)
                                                                                                                            aGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGa                                                                              <  4:112128/69‑1 (MQ=255)
                                                                                                                            aGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGa                                                                              >  3:112128/1‑69 (MQ=255)
                                                                                                                             gcgcCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACCGACTGAAGCGAATGAGTAAACTTg                                                            <  2:417160/86‑1 (MQ=255)
                                                                                                                             gcgcCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTg                                                            >  1:417160/1‑86 (MQ=255)
                                                                                                                              cgcCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACt                                                       <  2:302089/90‑1 (MQ=255)
                                                                                                                              cgcCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACt                                                       <  4:355096/90‑1 (MQ=255)
                                                                                                                              cgcCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACt                                                       >  1:302089/1‑90 (MQ=255)
                                                                                                                              cgcCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACt                                                       >  3:355096/1‑90 (MQ=255)
                                                                                                                              cgcCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACTTTTa                                                   <  3:788131/94‑1 (MQ=255)
                                                                                                                              cgcCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACTTTTa                                                   >  4:788131/1‑94 (MQ=255)
                                                                                                                              cgcCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACTTTTATCCAACATGCTGTaa                                    >  2:108851/1‑109 (MQ=255)
                                                                                                                              cgcCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACTTTTATCCAACATGCTGTaa                                    <  1:108851/109‑1 (MQ=255)
                                                                                                                                         gAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACt                                                       >  4:1118803/1‑79 (MQ=255)
                                                                                                                                         gAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACt                                                       <  3:1118803/79‑1 (MQ=255)
                                                                                                                                           |                                                                                                                                 
TCTCTACCGATGTGATGATCGTTAACTGTGGCAGTATCCCGCGTTCAGAAGGCAAGGCGTGTCGGGTGTTTGATCTGCGCAATATTGTTGGTGCCTGACGTATCGTCTGGCCCTGGTGGGGTAAAGCGCCAGGGCCAGAAGTCGATACGACCTGTGCTATGATTCATAAATCACAACAATAACAACAGACTGAAGCGAATGAGTAAACTTGATACTTTTATCCAACATGCTGTAAACGCTGTTCCGGTCAGTGGCACATCTTTGATCTC  >  NC_000913/1463341‑1463609

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: