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
A6 F1 I2 R1 758 59.3 2864096 93.9% 2689386 105.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,983,288 C→T *279* (TAG→TAA)  kduI ← hexuronate isomerase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,983,2880CT100.0% 220.8 / NA 68*279* (TAG→TAA) kduIhexuronate isomerase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (33/35);  total (33/35)

CCAGCCCCAACGCCATCCCCTGACCCAGTCCAGTATCACAACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAACTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTCCGACACCGGAATGGATCGACCAGCTCGGGGAGATCACCGC  >  NC_000913/2983168‑2983419
                                                                                                                        |                                                                                                                                   
ccAGCCCCAACGCCATCCCCTGACCCAGTCCAGTATCACAACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACg                                                                                                                   >  2:531506/1‑139 (MQ=255)
      ccAACGCCATCCCCTGACCCAGTCCAGTATCACAACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCcaca                                                                                                             <  1:1402042/139‑1 (MQ=255)
      ccAACGCCATCCCCTGACCCAGTCCAGTATCACAACCAGTGACGACCACAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCcaca                                                                                                             <  2:1332192/139‑1 (MQ=255)
               tCCCCTGACCCAGTCCAGTATCACAACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACCGCCACATGGTcc                                                                                                       >  1:903487/1‑136 (MQ=255)
               tCCCCTGACCCAGTCCAGTATCACAACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACCGCCACATGGTcc                                                                                                       <  2:903487/136‑1 (MQ=255)
                     gACCCAGTCCAGTATCACAACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATg                                                                                                           >  2:70974/1‑126 (MQ=255)
                     gACCCAGTCCAGTATCACAACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATg                                                                                                           <  1:70974/126‑1 (MQ=255)
                          agtccagtATCACAACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGAc                                                                                         <  2:345222/139‑1 (MQ=255)
                          agtccagtATCACAACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGAc                                                                                         <  1:531506/139‑1 (MQ=255)
                           gtccagtATCACAACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACgg                                                                                                                  >  2:41103/1‑113 (MQ=255)
                           gtccagtATCACAACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACgg                                                                                                                  <  1:41103/113‑1 (MQ=255)
                           gtccagtATCACAACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCca                                                                                                               <  2:615699/116‑1 (MQ=255)
                           gtccagtATCACAACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCca                                                                                                               >  1:615699/1‑116 (MQ=255)
                           gtccagtATCACAACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGAcc                                                                                        >  1:1305591/1‑139 (MQ=255)
                           gtccagtATCACAACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGAcc                                                                                        >  1:672232/1‑139 (MQ=255)
                                    cacaACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCa                                                                               <  1:75438/139‑1 (MQ=255)
                                      caACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCcaca                                                                                                             <  2:1392481/107‑1 (MQ=255)
                                      caACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCcaca                                                                                                             >  2:1261261/1‑107 (MQ=255)
                                      caACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCcaca                                                                                                             <  1:1261261/107‑1 (MQ=255)
                                      caACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCcaca                                                                                                             >  1:1392481/1‑107 (MQ=255)
                                         ccAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGAc                                                                          >  2:894362/1‑139 (MQ=255)
                                          cAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGAcc                                                                         <  1:894362/139‑1 (MQ=255)
                                           aGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCcac                                                                                                              >  1:471701/1‑101 (MQ=255)
                                           aGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCcac                                                                                                              <  2:471701/101‑1 (MQ=255)
                                           aGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCa                                                                        <  1:1321969/139‑1 (MQ=255)
                                                   ccGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAg                                                                >  2:1015320/1‑139 (MQ=255)
                                                              ccTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCatat                                                                                                   <  1:77075/93‑1 (MQ=255)
                                                              ccTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCatat                                                                                                   >  2:77075/1‑93 (MQ=255)
                                                              ccTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGtata                                                     <  2:1305591/139‑1 (MQ=255)
                                                                   gagagaAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTaa                                                                                                                     >  1:738430/1‑70 (MQ=255)
                                                                   gagagaAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTaa                                                                                                                     <  2:738430/70‑1 (MQ=255)
                                                                    agagaAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGa                                                               >  1:1077205/1‑123 (MQ=255)
                                                                    agagaAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGa                                                               <  2:1077205/123‑1 (MQ=255)
                                                                        aaaaTGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGcc                                                                    <  2:554476/114‑1 (MQ=255)
                                                                        aaaaTGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGcc                                                                    >  1:554476/1‑114 (MQ=255)
                                                                          aaTGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGAc                                                                                         <  2:750842/91‑1 (MQ=255)
                                                                          aaTGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGAc                                                                                         >  1:750842/1‑91 (MQ=255)
                                                                          aaTGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTcc                                         <  2:672232/139‑1 (MQ=255)
                                                                                           aaCAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTCCGACACCGGAATGGATCg                        >  1:130358/1‑139 (MQ=255)
                                                                                             cAATACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTCCGACACCGGAATGGATCGAc                      <  2:130358/139‑1 (MQ=255)
                                                                                                tACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCt                                                 >  2:579713/1‑109 (MQ=255)
                                                                                                tACCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCt                                                 <  1:579713/109‑1 (MQ=255)
                                                                                                 aCCTTATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTCCGACACCGGAATGGATCGACCAGc                  <  1:1015320/139‑1 (MQ=255)
                                                                                                     tATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCa                                                                               <  2:452491/74‑1 (MQ=255)
                                                                                                     tATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCa                                                                               >  1:452491/1‑74 (MQ=255)
                                                                                                     tATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCa                                                                        >  2:366065/1‑81 (MQ=255)
                                                                                                     tATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCa                                                                        <  1:366065/81‑1 (MQ=255)
                                                                                                     tATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTCCGACACCGGAATGGATCGACCAGCTCgg              >  2:238912/1‑139 (MQ=255)
                                                                                                     tATTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTCCGACACCGGAATGGATCGACCAGCTCgg              >  1:360166/1‑139 (MQ=255)
                                                                                                      aTTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTcc                                         <  2:117961/111‑1 (MQ=255)
                                                                                                      aTTCGTTTATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTcc                                         >  1:117961/1‑111 (MQ=255)
                                                                                                            ttATGCCCACAATTAGCGCAAATCTTTAACTGCCACATg                                                                                                           <  1:931429/39‑1 (MQ=255)
                                                                                                            ttATGCCCACAATTAGCGCAAATCTTTAACGGCcac                                                                                                              <  1:1043036/36‑1 (MQ=255)
                                                                                                            ttATGCCCACAATTAGCGCAAATCTTTAACGGCcac                                                                                                              >  2:1043036/1‑36 (MQ=38)
                                                                                                            ttATGCCCACAATTAGCGCAAATCTTTAACGGCCACATg                                                                                                           >  2:931429/1‑39 (MQ=255)
                                                                                                            ttATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTCCGACACCGGAATGGATCGACCAGCTCGGGGAGAt        <  2:386100/138‑1 (MQ=255)
                                                                                                            ttATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTCCGACACCGGAATGGATCGACCAGCTCGGGGAGAt        >  2:153288/1‑138 (MQ=255)
                                                                                                            ttATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTCCGACACCGGAATGGATCGACCAGCTCGGGGAGAt        >  1:386100/1‑138 (MQ=255)
                                                                                                            ttATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTCCGACACCGGAATGGATCGACCAGCTCGGGGAGAt        <  1:153288/138‑1 (MQ=255)
                                                                                                            ttATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTCCGACACCGGAATGGATCGACCAGCTCAGGGAGATc       >  2:762358/1‑139 (MQ=255)
                                                                                                             tATGCCCACAATTAGCGCACATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTCCGACACCGGAATGGATCGa                       <  1:897374/122‑1 (MQ=255)
                                                                                                             tATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATaa                                                            >  2:672438/1‑85 (MQ=255)
                                                                                                             tATGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATaa                                                            <  1:672438/85‑1 (MQ=255)
                                                                                                             gaTGCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTCCGACACCGGAATGGATCGa                       >  2:897374/2‑122 (MQ=255)
                                                                                                                gCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTcc                                         <  1:839740/101‑1 (MQ=255)
                                                                                                                gCCCACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTcc                                         >  2:839740/1‑101 (MQ=255)
                                                                                                                 cccACAATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTCCGACACCGGAATGGATCGACCAGCTCGGGGAGATCACCGc  >  2:507606/1‑139 (MQ=255)
                                                                                                                     caATTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGc                                                                     <  2:260641/68‑1 (MQ=255)
                                                                                                                        |                                                                                                                                   
CCAGCCCCAACGCCATCCCCTGACCCAGTCCAGTATCACAACCAGTGACGACCGCAACTTTACCTTCGAGAGAAAATGCACTTAAAATCATAACAATACCTTATTCGTTTATGCCCACAACTAGCGCAAATCTTTAACGGCCACATGGTCCATATCATCAAAGACCTGGTTTTCACCGACCATGCCCCAGATAAAGGTATAAGCTTTGGTTCCGACACCGGAATGGATCGACCAGCTCGGGGAGATCACCGC  >  NC_000913/2983168‑2983419

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A