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
A4 F1 I1 R1 765 39.6 1867486 94.4% 1762906 108.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,572,647 A→G S852S (AGT→AGC)  pqqL ← putative periplasmic M16 family zinc metalloendopeptidase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,572,6470AG100.0% 222.6 / NA 63S852S (AGT→AGC) pqqLputative periplasmic M16 family zinc metalloendopeptidase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (33/30);  total (33/30)

CTGCTCAGTCCATGCTGCAGGATCGTCATATTGAATAAGACTATTTACAATAGTGTTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCACTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTGACAAGTAAAAGCCAGCAAATGACTGATATCTTTGGCCTGAGGATCAACCGAGAGGCGAGAA  >  NC_000913/1572512‑1572782
                                                                                                                                       |                                                                                                                                       
cTGCTCAGTCC‑TGCTGCAGGATCGTCATATTGAATAAGACTATTTACAATAGTGTTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGa                                                                                                                                     <  2:653858/139‑1 (MQ=255)
 tGCTCAGTCCATGCTGCAGGATCGTCATATTGAATAAGACTATTTACAATAGTGTTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGa                                                                                                                                     <  1:238653/139‑1 (MQ=255)
             gctgcAGGATCGTCATATTGAATAAGACTATTTACAATAGTGTTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCa                                                                                                                         >  2:867425/1‑139 (MQ=255)
                             atTGAATAAGACTATTTACAATAGTGTTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGa                                                                                                                                     <  2:98027/111‑1 (MQ=255)
                             atTGAATAAGACTATTTACAATAGTGTTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGa                                                                                                                                     >  1:98027/1‑111 (MQ=255)
                               tGAATAAGACTATTTACAATAGTGTTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACtt                                                                                                       >  1:114042/1‑139 (MQ=255)
                                 aaTAAGACTATTTACAATAGTGTTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGa                                                                                                                                     >  1:33315/1‑107 (MQ=255)
                                 aaTAAGACTATTTACAATAGTGTTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGa                                                                                                                                     <  2:33315/107‑1 (MQ=255)
                                 aaTAAGACTATTTACAATAGTGTTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGc                                                                                                                    >  2:644880/1‑124 (MQ=255)
                                 aaTAAGACTATTTACAATAGTGTTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGc                                                                                                                    <  1:644880/124‑1 (MQ=255)
                                      gACTATTTACAATAGTGTTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGc                                                                                                >  2:289073/1‑139 (MQ=255)
                                        cTATTTACAATAGTGTTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGc                                                                                                                    >  2:645140/1‑117 (MQ=255)
                                        cTATTTACAATAGTGTTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGc                                                                                                                    <  1:645140/117‑1 (MQ=255)
                                                 aTAGTGTTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACa                                                                                     >  1:153695/1‑139 (MQ=255)
                                                  tAGTGTTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAg                                                                                    >  2:139197/1‑139 (MQ=255)
                                                     tgtTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGa                                                                                                                                     >  1:610874/1‑87 (MQ=255)
                                                     tgtTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGa                                                                                                                                     <  2:610874/87‑1 (MQ=255)
                                                     tgtTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCa                                                                                                                         <  1:470903/99‑1 (MQ=255)
                                                     tgtTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCa                                                                                                                         >  2:470903/1‑99 (MQ=255)
                                                     tgtTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTtc                                                                                 >  2:362226/1‑139 (MQ=255)
                                                     tgtTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTtc                                                                                 >  1:139077/1‑139 (MQ=255)
                                                      gtTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTtca                                                                                >  2:801495/1‑139 (MQ=255)
                                                       ttCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTa                                                                                                                 <  1:566207/105‑1 (MQ=255)
                                                       ttCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTa                                                                                                                 >  2:566207/1‑105 (MQ=255)
                                                       ttCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCa                                                                                                          >  2:931526/1‑112 (MQ=255)
                                                       ttCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCa                                                                                                          <  1:931526/112‑1 (MQ=255)
                                                       ttCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCg                                                                                                 >  2:13997/1‑121 (MQ=255)
                                                       ttCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCg                                                                                                 <  1:13997/121‑1 (MQ=255)
                                                       ttCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTtcat                                                                               >  1:494844/1‑139 (MQ=255)
                                                       ttCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTtcat                                                                               >  2:488046/1‑139 (MQ=255)
                                                       ttCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTCTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTtcat                                                                               >  2:220338/1‑139 (MQ=255)
                                                           cTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATg                                                                           <  1:867425/139‑1 (MQ=255)
                                                              aTTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCg                                                                        <  1:134693/139‑1 (MQ=255)
                                                               ttgttgAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGt                                                                                          <  1:792945/120‑1 (MQ=255)
                                                               ttgttgAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGt                                                                                          >  2:792945/1‑120 (MQ=255)
                                                                       cgctacgctGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTg                                                               <  1:801495/139‑1 (MQ=255)
                                                                         ctacgctGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTGAc                                                             <  1:289073/139‑1 (MQ=255)
                                                                         ctacgctGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTGAc                                                             <  1:488046/139‑1 (MQ=255)
                                                                            cgctGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTGAc                                                             <  1:107859/136‑1 (MQ=255)
                                                                            cgctGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTGAc                                                             >  2:107859/1‑136 (MQ=255)
                                                                                        tCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAAAGTTAACAGTTCATCATGTCGTTCTGGTTGACAAGTAAAAGCCAGCa                                              >  2:504719/1‑139 (MQ=255)
                                                                                         cGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCg                                                                                                 >  1:346078/1‑87 (MQ=255)
                                                                                         cGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCg                                                                                                 <  2:346078/87‑1 (MQ=255)
                                                                                         cGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTGACAAGTAAAAGCCAGCaa                                             <  2:139077/139‑1 (MQ=255)
                                                                                           tggCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTGACAAGTAAAAGCCAGCAAAt                                           <  1:266191/138‑1 (MQ=255)
                                                                                           aGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCa                                                                                                                         >  1:534201/1‑61 (MQ=255)
                                                                                           aGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCa                                                                                                                         <  2:534201/61‑1 (MQ=255)
                                                                                           aGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTGACAAGTAAAAGCCAGCAAAt                                           >  2:38253/1‑139 (MQ=255)
                                                                                           aGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTGACAAGTAAAAGCCAGCAAAt                                           >  2:342837/1‑139 (MQ=255)
                                                                                             gcagcgcTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCAt                                                                                                            >  1:4406/4‑72 (MQ=255)
                                                                                             gCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCAt                                                                                                            <  2:4406/72‑1 (MQ=255)
                                                                                             gCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTGACAAGTAAAAGCCAGCAAATGa                                         <  1:761443/139‑1 (MQ=255)
                                                                                                 cgcTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTGACAAGTAAAAGCCAGCAAATGACTGa                                     <  2:153695/139‑1 (MQ=255)
                                                                                                            ttGCTGGTATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTGACAAGTAAAAGCCAGCAAATGACTGATATCTTTGGcc                          <  1:38253/139‑1 (MQ=255)
                                                                                                                   tATTCATTCAGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTGACAAGTAAAAGCCAGCAAATGACTGATATCTTTGGCCTGAGGAt                   <  2:114042/139‑1 (MQ=255)
                                                                                                                            aGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACa                                                                                     <  2:188393/64‑1 (MQ=255)
                                                                                                                            aGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACa                                                                                     >  1:188393/1‑64 (MQ=255)
                                                                                                                            aGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTGACAAGTAAAAGc                                                   <  1:443210/98‑1 (MQ=255)
                                                                                                                            aGTTCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTGACAAGTAAAAGc                                                   >  2:443210/1‑98 (MQ=255)
                                                                                                                              ttCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTGACAAGTAAAAGCCAGCAAATGACTGATATCTTTGGCCTGAGGAt                   <  2:447762/128‑1 (MQ=255)
                                                                                                                              ttCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTGACAAGTAAAAGCCAGCAAATGACTGATATCTTTGGCCTGAGGAt                   >  1:447762/1‑128 (MQ=255)
                                                                                                                               tCTTGCTCGCTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTGACAAGTAAAAGCCAGCAAATGACTGATATCTTTGGCCTGAGGATCAACCGAGAGGc       >  1:590282/1‑139 (MQ=255)
                                                                                                                                    cTCGCTGATCCCTTTAGCCAGACGCTTAACCATAACTTCATTGGCTTACGTTAAGAGTTCATCATGTCGTTTTGGTTGACAAGTAAAAGCCAGCAAATGACTGATATATTTGGCCTAGGGATGAACCGAGAGGCGagaa  >  2:484076/1‑139 (MQ=255)
                                                                                                                                       |                                                                                                                                       
CTGCTCAGTCCATGCTGCAGGATCGTCATATTGAATAAGACTATTTACAATAGTGTTCGCTAATTGTTGAACGCTACGCTGTTGGATATCGAGGCTGCGCTGAACGTTTTGCTGGTATTCATTCAGTTCTTGCTCACTGATCCCTTTAGCCAGACGCTTAACCATCACTTCATTCGCTAACGTTAACAGTTCATCATGTCGTTCTGGTTGACAAGTAAAAGCCAGCAAATGACTGATATCTTTGGCCTGAGGATCAACCGAGAGGCGAGAA  >  NC_000913/1572512‑1572782

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A