Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 1,513,930 A→T 100% L413F (TTA→TTT USA300HOU_1379 → hypothetical membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,513,9300AT100.0% 149.1 / ‑6.5 53L413F (TTA→TTTUSA300HOU_1379hypothetical membrane protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  major base T (18/34);  minor base G (1/0);  total (19/34)
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TTTATTTGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTAATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAATTT  >  CP000730/1513795‑1514062
                                                                                                                                       |                                                                                                                                    
tttatttGTATGTATCGCTTTATTAGTAGCCATTGGTATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAACATCTATATCACTCATAATATGTTTTATTg                                                                                                                                  <  1:10463/140‑1 (MQ=255)
tttatttGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAATAGTACCACATCGCGTAAAAAAACCAACATCTATATCACTCAGAATATGTTTTATTg                                                                                                                                  <  1:10840/140‑1 (MQ=255)
tttatttGTATGAATCGATTTATCTGTAGTCATTGGCATGGGGTTTGTCTTTTTGATAAAGCGTACAAAAAATATTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTg                                                                                                                                  <  1:301464/140‑1 (MQ=255)
 ttatttttatttAACCATTTATTAGTAGCGATTAGCATGGGGTTTGTCTCTTGAAAAAAAAAAAAAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGt                                                                                                                                 <  2:608799/140‑1 (MQ=255)
 ttatttGTATGTATCGCTTTATTCGTAGCAATTGGCATGGGGTTTGTCTCTTGGATAAAGCCTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCTTCTATATCACTCATAATATGTTTTATTGt                                                                                                                                 <  2:605588/140‑1 (MQ=255)
   tgttGGATGGATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTAt                                                                                                                               <  2:200744/138‑1 (MQ=255)
   atttGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATTGCGTAAAAAAAACAGCATCTATATAACACATAATAGGTTTTATTGTAt                                                                                                                               >  2:559705/1‑140 (MQ=255)
   atttGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTAt                                                                                                                               <  2:343570/140‑1 (MQ=255)
   agttGTATGTATCGGTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTAt                                                                                                                               <  2:624203/138‑1 (MQ=255)
                gCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAAt                                                                                                                  <  1:425308/140‑1 (MQ=255)
                 cTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATg                                                                                                                 <  1:174140/140‑1 (MQ=255)
                         tttggcATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCattatt                                                                                                         <  2:495348/135‑1 (MQ=255)
                               aTTGGCATGGTGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATAAGGATTATTAATGCCATTATTTGGAtt                                                                                                   <  1:8341/140‑1 (MQ=255)
                               aTTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCTCTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGAtt                                                                                                   <  2:492262/140‑1 (MQ=255)
                                 tGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTAt                                                                                                 >  2:514086/1‑140 (MQ=255)
                                 tGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTAt                                                                                                 <  1:141847/140‑1 (MQ=255)
                                 tGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATAATGCAATAACAGTAGAACAACAAGTAAAAGAAACAGAGACTAGCTGCTAGATAGTAAGCTTTATTGTATTAGGATTATTAATGCCATCATTTTGATTAt                                                                                                 >  2:2276/1‑140 (MQ=255)
                                  ggCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCAGAATAAGATATATTGTATTAGGATTACTAATGCCATAAATTGAatcatc                                                                                                >  2:153941/1‑140 (MQ=255)
                                     aTGTGGTGTGTCTCTTGGATAAAGCTTACAAAAAATACTGTAATAAAAGTACCACATCGCTTAAAAAAACCAGCATCTATATCACTTATAATATGTTTTATTTTATTAGGATTATTAATTCCATTATTTGGATTATCACt                                                                                             <  2:51180/140‑1 (MQ=255)
                                     aTGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACt                                                                                             >  1:207455/1‑140 (MQ=255)
                                           tttGTCTCTTGGATAAAGCGTACAAAACATACTGCAATAAAAGTACCACATCGCGTAAAAAAAAAAGCATCTATAACACTCATAATATATTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCt                                                                                       >  1:31537/1‑140 (MQ=255)
                                            ttGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCtt                                                                                      >  1:634285/1‑140 (MQ=255)
                                             tGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATCATTTGGATTATGACTTATCCttt                                                                                     >  2:378028/1‑139 (MQ=255)
                                               tctcTTGGAGAAAGCGTACCAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTa                                                                                   <  2:84653/140‑1 (MQ=255)
                                                      gaaaaaGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATaa                                                                            <  2:185975/137‑1 (MQ=255)
                                                       aTAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCTGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATCCCATTATTTGGATTATCAGTTTTCCTTGTATTTATAAt                                                                           <  1:372473/140‑1 (MQ=255)
                                                       aTAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAAt                                                                           <  1:539680/140‑1 (MQ=255)
                                                       aTAAAACGTACAAAAAATACTGCAATAAAAGTACCACATTGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAAt                                                                           <  2:229506/140‑1 (MQ=255)
                                                            gCGTACAATAAATACTGCAATTAAAGTTCCACTTCGCGTTATAATACCAGTATCTTTATCTCTCATTATATGTTTTGTTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAAt                                                                      <  1:142421/140‑1 (MQ=255)
                                                             cGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAAtt                                                                     >  2:633208/1‑140 (MQ=255)
                                                             cGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAAtt                                                                     <  1:588827/140‑1 (MQ=255)
                                                                  aaaacaTACTGACATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAatat                                                                <  2:447511/140‑1 (MQ=255)
                                                                       aTACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATtatat                                                           <  1:309552/140‑1 (MQ=255)
                                                                           tgaaaTAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTa                                                       <  2:63607/137‑1 (MQ=255)
                                                                              caTAAAAGCACACGATCTCTTAAATAACCCAGCATGTATAGCACTCATAATTTGTTTTATTGTATTAGGATTATTAAGGCCATTATGTGGATCATCAGTTATCCTTGTATTTATGATGGAATTGATATTATATATTAAAg                                                    <  2:431215/139‑1 (MQ=255)
                                                                                 aaaaGTACCACATCGCGTAAAAAAACCAGCAACTATATCACTCATAATATATTTGATTGTATTAGGATTATTCATGCCATTATTTGGATTATCACTTATCCTTGTATTTATACTTGAATTAATATAATATATTaacgcac                                                 >  2:126605/1‑135 (MQ=255)
                                                                                    aGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTCTTTGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGAtcgtc                                              >  1:140662/1‑140 (MQ=255)
                                                                                    aGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGAtcgtc                                              >  2:266731/1‑140 (MQ=255)
                                                                                    aGTACCACAACGCGTAAAAAAACCAGCATCTATATCACTAATAATATGTTTTATAGTATTAGAATTATTAATGCCATTATTTGGATTATCACTTATCCTTATATTTATAATTGAATTAATATTATATATTAAAGAtcgtc                                              >  2:253060/1‑140 (MQ=255)
                                                                                                  tAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACaataa                                >  1:560384/1‑140 (MQ=255)
                                                                                                  tAAAAAAACCAGCACCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACaataa                                >  1:368692/1‑140 (MQ=255)
                                                                                                                 cTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGtttt                 >  2:387540/1‑140 (MQ=255)
                                                                                                                 cTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGtttt                 >  2:118901/1‑140 (MQ=255)
                                                                                                                     ttaacccATAATATGTTTTAGTGGATTAGGATTATTATTGCTATTATTTGGATTATCACTTATCCTTGTATTTATAATTTAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAAc             <  1:514086/134‑1 (MQ=255)
                                                                                                                     atCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAAc             <  1:2276/140‑1 (MQ=255)
                                                                                                                      tcccTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTTTTCTTGTATTTATAATTGTTTTATTATTATTTATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACt            <  1:23599/137‑1 (MQ=255)
                                                                                                                      tCACTCATAATATTTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACt            <  2:267251/140‑1 (MQ=255)
                                                                                                                      tCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACt            <  1:649348/140‑1 (MQ=255)
                                                                                                                         cTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGAc         >  2:632651/1‑140 (MQ=255)
                                                                                                                         cTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATACTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGAc         >  2:37293/1‑140 (MQ=255)
                                                                                                                              aataTGTTTTATTGTATTAGGATTATTAATGCCATTATTTTGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAACGCACTTAAAGTTTTGAACTGACGAAAt    <  1:389099/140‑1 (MQ=255)
                                                                                                                                tatGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGGTTATCACTTTTCCTTGTATTTTTACTTGCATCTATAGTATGTGTTTGGCGACGTCTTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAAttt  <  1:156961/140‑1 (MQ=255)
                                                                                                                                tatGTTTTATTGTATTAGGATTATTAATGCCATTATTGGGATTATCACTTATCCTTTTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAAttt  <  1:285324/140‑1 (MQ=255)
                                                                                                                                       |                                                                                                                                    
TTTATTTGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTAATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAATTT  >  CP000730/1513795‑1514062

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: