Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A1 F1 I1 R1 773 79.9 4112934 92.2% 3792125 104.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,824,496 Δ1 bp coding (1081/1086 nt) mltB ← membrane‑bound lytic murein transglycosylase B

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,824,4960G.100.0% 245.6 / NA 60coding (1081/1086 nt)mltBmembrane‑bound lytic murein transglycosylase B
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base . (28/32);  total (28/32)

TGCCGGACAAGATAGCACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGATGGTGTAGAAGTTCGGCAGACCGTACCAGTACTGGTAGC  >  NC_000913/2824373‑2824612
                                                                                                                           |                                                                                                                    
tGCCGGACAAGATAGCACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCgcgccagcgcc                                                                                                      <  1:1676334/139‑1 (MQ=255)
     gACAAGATAGCACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGc                                                                                                 <  2:984017/139‑1 (MQ=255)
     gACAAGATAGCACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGc                                                                                                 <  2:166667/139‑1 (MQ=255)
          gATAGCACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCgcgcc                                                                                                            <  2:1245744/123‑1 (MQ=255)
          gATAGCACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCgcgcc                                                                                                            >  1:1245744/1‑123 (MQ=255)
               cACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGc                                                                                                 <  2:405870/129‑1 (MQ=255)
               cACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGc                                                                                                 >  1:405870/1‑129 (MQ=255)
                  tttCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGc                                                                                    <  1:1035317/139‑1 (MQ=255)
                    tCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCa                                                                                  >  2:752705/1‑139 (MQ=255)
                    tCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCa                                                                                  >  2:1200302/1‑139 (MQ=255)
                      gTCAGGAAGATGGCGTTGGCGTTACAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCACGCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGa                                                                                <  1:1357626/139‑1 (MQ=255)
                       tCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGAc                                                                               <  1:1377002/139‑1 (MQ=255)
                       tCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGAc                                                                               <  2:4136/139‑1 (MQ=255)
                                   tgtTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTa                                                                   >  2:75068/1‑139 (MQ=255)
                                     ttGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAAt                                                                 >  1:67227/1‑139 (MQ=255)
                                        gCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATggg                                                              <  2:67227/139‑1 (MQ=255)
                                           ttGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCg                                                                             >  1:1567120/1‑121 (MQ=255)
                                           ttGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCg                                                                             <  2:1567120/121‑1 (MQ=255)
                                            tGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCt                                                          <  1:1645603/139‑1 (MQ=255)
                                             gCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGc                                                                      >  1:615190/1‑126 (MQ=255)
                                             gCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGc                                                                      <  2:615190/126‑1 (MQ=255)
                                             gCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCtg                                                         >  2:1946466/1‑139 (MQ=255)
                                                   ttACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTg                                                   <  1:752705/139‑1 (MQ=255)
                                                           aggaTTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGt                                           >  2:1637195/1‑139 (MQ=255)
                                                             gaTTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGa                                         <  1:1707466/139‑1 (MQ=255)
                                                               ttCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCt                                                                                          <  1:547785/88‑1 (MQ=255)
                                                               ttCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCt                                                                                          >  2:547785/1‑88 (MQ=255)
                                                                    aaaaaaGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGATGGTGTa                                  >  2:879769/1‑139 (MQ=255)
                                                                       aaaGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGATGGTGTAGaa                               >  1:667959/1‑139 (MQ=255)
                                                                              aTTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATggg                                                              >  2:740756/1‑101 (MQ=255)
                                                                              aTTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATggg                                                              <  1:740756/101‑1 (MQ=255)
                                                                                     agagGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGATGGTGTAGAAGTTCGGCAGACCGt                 >  2:1931964/1‑139 (MQ=255)
                                                                                      gagGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGATGGTGTAGAAGTTCGGCAGACCGTa                <  2:667959/139‑1 (MQ=255)
                                                                                      gagGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGATGGTGTAGAAGTTCGGCAGACCGTa                <  1:1946466/139‑1 (MQ=255)
                                                                                       agGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCAt                                                                         >  2:1801555/1‑81 (MQ=255)
                                                                                       agGGAAGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCAt                                                                         <  1:1801555/81‑1 (MQ=255)
                                                                                            aGCTCACGCCCCCCTCTTGTAAATAGTTGCT‑TACTCGCGCCAGCGCCACGGc                                                                                                 >  2:1276398/1‑52 (MQ=37)
                                                                                            aGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGc                                                                                                 <  1:1276398/52‑1 (MQ=38)
                                                                                            aGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTg                                                                                              >  1:1979453/1‑55 (MQ=255)
                                                                                            aGCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTg                                                                                              <  2:1979453/55‑1 (MQ=255)
                                                                                             gCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCAt                                                                         <  2:1611595/75‑1 (MQ=255)
                                                                                             gCTCACGCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCAt                                                                         >  1:1611595/1‑75 (MQ=255)
                                                                                                  cGCCCCCCTCTTGTAAATAGTTACT‑TACTCgcgcc                                                                                                            >  1:59724/1‑35 (MQ=255)
                                                                                                  cGCCCCCCTCTTGTAAATAGTTACT‑TACTCgcgcc                                                                                                            <  2:59724/35‑1 (MQ=255)
                                                                                                   gCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCt                                                          <  2:837987/84‑1 (MQ=255)
                                                                                                   gCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCt                                                          >  1:837987/1‑84 (MQ=255)
                                                                                                   gCCCCCCTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGATGGTGTAGAAGTTCGGCAGACCGTACCAGTACTGGTAg   >  2:184723/1‑139 (MQ=255)
                                                                                                    ccccccTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGATGGTGTAGAAGTTCGGCAGACCGTACCAGTACTGGTAGc  <  1:879769/139‑1 (MQ=255)
                                                                                                        ccTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAAc                                               <  2:1805576/90‑1 (MQ=255)
                                                                                                        ccTCTTGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAAc                                               >  1:1805576/1‑90 (MQ=255)
                                                                                                             tGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGATGGTGTAGAAGTTCGGCAGa                     <  1:594776/111‑1 (MQ=255)
                                                                                                             tGTAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGATGGTGTAGAAGTTCGGCAGa                     >  2:594776/1‑111 (MQ=255)
                                                                                                               tAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGAc                                                                               >  2:674434/1‑51 (MQ=38)
                                                                                                               tAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGAc                                                                               <  1:674434/51‑1 (MQ=38)
                                                                                                               tAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGAc                                                                               >  1:1731230/1‑51 (MQ=38)
                                                                                                               tAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGAc                                                                               <  2:1731230/51‑1 (MQ=38)
                                                                                                               tAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGt                                                             <  1:1287089/69‑1 (MQ=255)
                                                                                                               tAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGt                                                             >  2:1287089/1‑69 (MQ=255)
                                                                                                               tAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGATGGTGTAGAAGTTCGGCAGa                     >  1:975348/1‑109 (MQ=255)
                                                                                                               tAAATAGTTACT‑TACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGATGGTGTAGAAGTTCGGCAGa                     <  2:975348/109‑1 (MQ=255)
                                                                                                                           |                                                                                                                    
TGCCGGACAAGATAGCACTTTCGTCAGGAAGATGGTGTTGGCGTTGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGTAATGGGTGCTGTGGTTGTAACGGGTGATGGTGTAGAAGTTCGGCAGACCGTACCAGTACTGGTAGC  >  NC_000913/2824373‑2824612

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A