Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,648,289 A→G intergenic (+143/‑5) agrA → / → agrB small RNA AgrA/small RNA AgrB

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,648,2890AG100.0% 174.7 / NA 52intergenic (+143/‑5)agrA/agrBsmall RNA AgrA/small RNA AgrB
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (33/19);  total (33/19)

GATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGAGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTTTTTACGTCCTGATTCAGACCTCCTTTCAAATGAATAGCCAACTCAAAATTCAC  >  NC_000913/3648152‑3648425
                                                                                                                                         |                                                                                                                                        
gATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGc                                                                                                                                        <  1:701330/140‑1 (MQ=255)
 aTTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCACTGTTAGCCACTGGGTAATAGTATTGGGcc                                                                                                                                       >  1:335803/1‑139 (MQ=255)
   tCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGt                                                                                                                                     <  2:45784/140‑1 (MQ=255)
   tCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGt                                                                                                                                     <  2:859000/140‑1 (MQ=255)
    cGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGtt                                                                                                                                    >  1:145902/1‑140 (MQ=255)
            gCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGa                                                                                                                            <  2:145902/140‑1 (MQ=255)
             cTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGaa                                                                                                                           <  2:131391/140‑1 (MQ=255)
                      aCGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGTCTAATAGAATTAGGGTGTTAGGTAAGAACTCTCTCAc                                                                                                                  >  1:265289/1‑140 (MQ=255)
                      aCGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAAc                                                                                                                          >  2:628661/1‑132 (MQ=255)
                      aCGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAAc                                                                                                                          <  1:628661/132‑1 (MQ=255)
                      aCGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCAc                                                                                                                  <  1:165889/140‑1 (MQ=255)
                            aCCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAAc                                                                                                                          >  2:59374/1‑126 (MQ=255)
                            aCCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAAc                                                                                                                          <  1:59374/126‑1 (MQ=255)
                            aCCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTccagc                                                                                                            >  1:745720/1‑140 (MQ=255)
                            aCCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTAGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTccagc                                                                                                            >  1:542088/1‑140 (MQ=255)
                             cccAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTccag                                                                                                             >  2:594641/1‑138 (MQ=255)
                             cccAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTccag                                                                                                             <  1:594641/138‑1 (MQ=255)
                                          tataAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACt                                                                                              <  1:471400/140‑1 (MQ=255)
                                               aTCTTCACTGCGATATATACCGAAGTTCTCTTTTCGCCAGCTGTAGAAATCGCTAGTTCTTGCAATTTTTGCCTCTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAggg                                                                                         <  2:449500/140‑1 (MQ=255)
                                                   tCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGGAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTgg                                                                                     >  1:99266/1‑140 (MQ=255)
                                                   tCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTgg                                                                                     >  1:810208/1‑140 (MQ=255)
                                                                     aaGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGc                                                                   >  1:173700/1‑140 (MQ=255)
                                                                     aaGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGACACCAACTCAGGGCTGGCAAGTAAAAAACCGACGc                                                                   >  2:336700/1‑140 (MQ=255)
                                                                      aGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCa                                                                  >  2:85129/1‑140 (MQ=255)
                                                                        tGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCATCTCAGGGCTGGAAAGTAAAAAACCGa                                                                      >  2:350785/1‑134 (MQ=255)
                                                                        tGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCATCTCAGGGCTGGAAAGTAAAAAACCGa                                                                      <  1:350785/134‑1 (MQ=255)
                                                                        tGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCaaa                                                                >  2:843809/1‑140 (MQ=255)
                                                                        tGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCaaa                                                                >  2:623441/1‑140 (MQ=255)
                                                                          ctccctccGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCAGCAACTCAGGGCAGGCAAGTAATAAACCGACGCAAAGt                                                              >  1:370796/1‑140 (MQ=255)
                                                                          ctccctccGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGt                                                              >  2:435350/1‑140 (MQ=255)
                                                                               tccGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGtt                                                         >  1:809868/1‑140 (MQ=255)
                                                                                   ccAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGt                                                              <  2:178188/131‑1 (MQ=255)
                                                                                   ccAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGt                                                              >  1:178188/1‑131 (MQ=255)
                                                                                       cTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTTTTTACg                                                 >  1:495997/1‑140 (MQ=255)
                                                                                                 cGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTTTTTACGTCCTGATTCa                                       >  1:117321/1‑140 (MQ=255)
                                                                                                    tAATTCTTGCAATGTTAACCACCGGCTAATACTATCGGGATGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTTTTTACGTCCTGATTCAGAc                                    <  2:265289/140‑1 (MQ=21)
                                                                                                    tAATCCTTGCAATGTTAGCCATTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGTAAAGTCGGTTTTTTTACGTCCTGATTCAGAc                                    <  2:723858/140‑1 (MQ=255)
                                                                                                            gCAATGTTAGCCACTGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTTTTTACGTCCTGATTCAGACCTCCTTTc                            >  1:501236/1‑140 (MQ=255)
                                                                                                                  ttAGCCACTAGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCTCCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTTTTTACGTCCTGATTCAGACCTCCTTTCAAATGa                      <  2:542088/140‑1 (MQ=255)
                                                                                                                          tGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTTTTTACGTCCTGATTCAGACCTCCTTTCAAATGAATAGCCaa              >  1:730818/1‑140 (MQ=255)
                                                                                                                          tGGCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTTTTTACGTCCTGATTCAGACCTCCTTTCAAATGAATAGCCaa              >  1:637964/1‑140 (MQ=255)
                                                                                                                           ggCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTAGGTTTTTTTACGCCCTAATTCAGACGTCCTGTCAAATGAATAGCCAAc             >  2:272816/1‑140 (MQ=25)
                                                                                                                            gCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTTTTTACGTCCTGATTCAGACCTCCTTTCAAATGAATAGCCAACt            >  2:28842/1‑140 (MQ=255)
                                                                                                                            gCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTTTTTACGTCCTGATTCAGACCTCCTTTCAAATGAATAGCCAACt            >  1:532808/1‑140 (MQ=255)
                                                                                                                            gCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTTTTTACGTCCTGATTCAGACCTCCTTTCAAATGAATAGCCAACt            >  2:823325/1‑140 (MQ=255)
                                                                                                                            gCTAATAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAACCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTTTTTACGTGCTGATTCAGACCCCCTTACAAATGAATAGCCAACt            >  2:288780/1‑140 (MQ=25)
                                                                                                                                 tAGTATTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTTTTTACGTCCTAATTCAGAGCTCGTTGCAAATGAATAGCCAACTCaaaa       >  1:234210/1‑140 (MQ=25)
                                                                                                                                     aTTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTTTTTACGTCCTGATTCAGACCTCCTTTCAAATGAATAGCCAACTCAAAATTca   <  2:745720/140‑1 (MQ=255)
                                                                                                                                     aTTGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTTTTTACGTCCTGATTCAGACCTCCTTTCAAATGAATAGCCAACTCAAAATTca   <  2:99266/140‑1 (MQ=255)
                                                                                                                                      ttGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTTTTTACGTCCTGATTCAGACCTCCTTTCAAATGAATAGCCAACTCAAAATTcac  <  1:435350/140‑1 (MQ=255)
                                                                                                                                      ttGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTTTTTACGTCCTGATTCAGACCTCCTTTCAAATGAATAGCCAACTCAAAATTcac  >  1:809249/1‑140 (MQ=255)
                                                                                                                                      ttGGGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTTTTTACGTCCTGATTCAGACCTCCTTTCAAATGAATAGCCAACTCAAAATTcac  >  1:569192/1‑140 (MQ=255)
                                                                                                                                         |                                                                                                                                        
GATTCGGACAAGGCTTAATATGACGATGACCCAGTGAAAGTATATAAATCGTCACTGCGATATATACCGAAGTGCTCCCTCCGCCAGCTGAAGAAATCGCTAATTCTTGCAATGTTAGCCACTGGCTAATAGTATTGAGCTGTTAGATAAGAACTCTCTCACTCCAGCCAGAGCCACCAACTCAGGGCTGGAAAGTAAAAAACCGACGCAAAGTCGGTTTTTTTACGTCCTGATTCAGACCTCCTTTCAAATGAATAGCCAACTCAAAATTCAC  >  NC_000913/3648152‑3648425

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑