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
A14 F56 I20 R2 1958 92.1 3575798 91.1% 3257551 126.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA CP006881 2,173,697 T→G G17G (GGA→GGC)  U712_10870 ← Bifunctional protein BirA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068812,173,6970TG98.4% 198.9 / ‑4.5 62G17G (GGA→GGC) U712_10870Bifunctional protein BirA
Reads supporting (aligned to +/- strand):  ref base T (0/1);  new base G (30/31);  total (30/32)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.74e-01

CCGATATCCTTTTCTTCTAACGGCTTCTACTTCATAGCCCTCTTTCCGAAGCTCTTCAATATGCTTCCACACAGCAGTTCTGGAACAGCCGAGGGCATCACTGATTTTTTGGCCGGAAATAAATTCACTTCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCACTCCTCTATGTGTTTCTTTTGATTGGAGAGCTTTCCTGTCACAACAGCCTGCTCGATCC  >  CP006881/2173568‑2173817
                                                                                                                                 |                                                                                                                        
ccGATATCCTTTTCTTCTAACGGCTTCTACTTCATAACCCTCTTTCCGAAGCTCTTCAATATGCTTCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCt                                                                                                                   >  8:227906/1‑137 (MQ=255)
        cTTTTCTTCTAACGGCTTCTACTTCATAACCCTCTTTCCGAAGCTCTTCAATATGCTTCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAaataa                                                                                                         <  8:285150/139‑1 (MQ=255)
                   aCGGCTTCTACTTCATAACCCTCTTTCCGAAGCTCTTCAATATGCTTCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGt                                                                                              >  1:319228/1‑139 (MQ=255)
                     ggCTTCTACTTCATAGCCCTCTTTCCGAAGCTCTTCAATATGCTTCCACACAGCAGTTCTGGAACAGCCGAGGGCATCACTGATTTTTTGGCCGGAAATAAATTCACTTCCGGCCTGAGAAAATAATTCAATAAGGTCt                                                                                            <  3:382274/139‑1 (MQ=255)
                     ggCTTCTACTTCATAACCCTCTTTCCGAAGCTCTTCAATATGCTTCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCt                                                                                            <  5:390276/139‑1 (MQ=255)
                        ttCTACTTCATAACCCTCTTTCCGAAGCTCTTCAATATGCTTCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAaataa                                                                                                         <  7:80501/123‑1 (MQ=255)
                        ttCTACTTCATAACCCTCTTTCCGAAGCTCTTCAATATGCTTCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAaataa                                                                                                         >  8:80501/1‑123 (MQ=255)
                                    acccTCTTTCCGAAGCTCTTCAATATGCTTCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGAc                                                                             <  7:206355/138‑1 (MQ=255)
                                    accatctTTCCGAAGCTCTTCAATATGCTTCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGTCCTGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGAc                                                                             <  8:126247/135‑1 (MQ=255)
                                          tttCCGAAGCTCTTCAATATGCTTCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCa                                                                         <  7:3426/137‑1 (MQ=255)
                                          tttCCGAAGCTCTTCAATATGCTTCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCa                                                                         <  4:91896/137‑1 (MQ=255)
                                          tttCCGAAGCTCTTCAATATGCTTCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCa                                                                         <  2:319228/137‑1 (MQ=255)
                                          tttCCGAAGCTCTTCAATATGCTTACACACAGCAGTTATTGAACAGCAGAGAGCTTCACTGATTTTTTGGCAGGAAATAAATTAATTGCCGTCCTGAGAAAATAATTCAATAAGGTCTTTTATTAATGTTGAACGCATg                                                                       >  8:406845/1‑139 (MQ=255)
                                            tCCGAAGCTATTCAATATGCTTCCACACATCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGTAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCa                                                                         <  7:406845/135‑1 (MQ=255)
                                               gAAGCTCTTCAATATGCTTCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTc                                                                  <  4:128616/139‑1 (MQ=255)
                                               gAAGCTCTTCAATATGCTTCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTc                                                                  <  7:227906/139‑1 (MQ=255)
                                                      ttCAATATGCTTCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCa                                                             <  6:11534/137‑1 (MQ=255)
                                                      ttCAATATGCTTCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCa                                                             <  1:222276/137‑1 (MQ=255)
                                                            atGCTTCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCACTACTCTa                                                     <  4:79947/139‑1 (MQ=255)
                                                             tGCTTCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCACTCCTCTAt                                                    >  2:376655/1‑139 (MQ=255)
                                                               cTTCCACCCAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCACTCCTCTAtgt                                                  >  6:277644/1‑139 (MQ=255)
                                                                ttCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTga                                                                                                                 <  6:319742/75‑1 (MQ=255)
                                                                ttCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTga                                                                                                                 >  5:319742/1‑75 (MQ=255)
                                                                ttCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCt                                                                                            >  5:398894/1‑96 (MQ=255)
                                                                ttCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCt                                                                                            <  6:392448/96‑1 (MQ=255)
                                                                ttCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCt                                                                                            >  5:392448/1‑96 (MQ=255)
                                                                ttCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCt                                                                                            <  6:398894/96‑1 (MQ=255)
                                                                ttCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGcc                                                              <  4:369216/126‑1 (MQ=255)
                                                                ttCCACACAGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGcc                                                              >  3:369216/1‑126 (MQ=255)
                                                                   cacacaGCAGTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCACTCCTCTATGTGttt                                              >  2:86079/1‑139 (MQ=255)
                                                                        agcagTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATg                                                                                  <  4:29076/98‑1 (MQ=255)
                                                                        agcagTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATg                                                                                  >  3:29076/1‑98 (MQ=255)
                                                                          cagTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTc                                                                                        >  5:179963/1‑90 (MQ=255)
                                                                          cagTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTc                                                                                        <  6:179963/90‑1 (MQ=255)
                                                                          cagTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCACTCCTCTATGTGTTTCTTTTGa                                       >  1:115258/1‑139 (MQ=255)
                                                                          cagTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCACTCCTCTATGTGTTTCTTTTGa                                       >  6:226415/1‑139 (MQ=255)
                                                                          cagTTCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCACTCCTCTATGTGTTTCTTTTGa                                       >  4:386832/1‑139 (MQ=255)
                                                                             ttCTTGAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCACTCCTCTATGTGTTTCTTTTGATTg                                    >  2:429698/1‑139 (MQ=255)
                                                                               cttgAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCTCATGTCTTCAGCCACTCCTCTATGTGTTTCTGTTGATTg                                    >  7:395223/4‑137 (MQ=255)
                                                                               cttgAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCACTCCTCTATGTGTTTCTTTTGATTg                                    >  3:259549/4‑137 (MQ=255)
                                                                                  gAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGcc                                                              >  3:84382/1‑108 (MQ=255)
                                                                                  gAACAGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGcc                                                              <  4:84382/108‑1 (MQ=255)
                                                                                      aGCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCACTCCTCTATGTGTTTCTTTTGATTGGAGAGCttc                           <  5:277644/139‑2 (MQ=255)
                                                                                       gCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCa                                                                         <  4:164186/92‑1 (MQ=255)
                                                                                       gCCGAGAGCATCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCa                                                                         >  3:164186/1‑92 (MQ=255)
                                                                                        ccGAGAGCAGCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAATGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCACTCCTCTATGTGTTTCTTTTGATTTGAGAGCTTccc                         >  5:365691/1‑139 (MQ=255)
                                                                                                aTCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGAc                                                                             >  2:96716/1‑79 (MQ=255)
                                                                                                aTCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGAc                                                                             <  1:96716/79‑1 (MQ=255)
                                                                                                aTCACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCACTCCTCTATGTGTTTCTTTTGATTGGAGAGCTTCCCTGTCacaa                 >  2:20693/1‑139 (MQ=255)
                                                                                                  cACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCa                                                                         <  1:128242/81‑1 (MQ=255)
                                                                                                  cACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCa                                                                         >  2:128242/1‑81 (MQ=255)
                                                                                                  cACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGcc                                                              >  6:182513/1‑92 (MQ=255)
                                                                                                  cACTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGcc                                                              <  5:182513/92‑1 (MQ=255)
                                                                                                   aCTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCACTCCTCTATGTGTTTCTTTTGATTGGAGAGCTTCCCTGTCacaaca               <  7:442120/138‑1 (MQ=255)
                                                                                                    cTGATTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCACTCCTCTATGTGTTTCTTTTGATTGGAGAGCTTCCCTGTCACAACAGc             <  3:386832/139‑1 (MQ=255)
                                                                                                       aTTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCa                                                             >  7:378990/1‑88 (MQ=255)
                                                                                                       aTTTTTTGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCa                                                             <  8:378990/88‑1 (MQ=255)
                                                                                                         tttttGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCACTCCTCTATGTGTTTCTTTTGATTGGAGAGCTTCCCTGTCACAACAGCCTGCt        >  7:110915/1‑139 (MQ=255)
                                                                                                          ttttGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGc                                                               <  4:262208/83‑1 (MQ=255)
                                                                                                          ttttGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGc                                                               >  3:262208/1‑83 (MQ=255)
                                                                                                          ttttGGCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCACTCCTCTATGTGTTTCTTTTGATTGGAGAGCTTCCCTGTCACAACAGCCTGCt        <  8:68288/138‑1 (MQ=255)
                                                                                                               gCCGGAAATAAATTCATTGCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCACTCCTCTATGTGTTTCTTTTGATTGGAGAGCTTCCCTGTCACAACAGCCTGCTCGATcc  >  3:66477/1‑139 (MQ=255)
                                                                                                                                 |                                                                                                                        
CCGATATCCTTTTCTTCTAACGGCTTCTACTTCATAGCCCTCTTTCCGAAGCTCTTCAATATGCTTCCACACAGCAGTTCTGGAACAGCCGAGGGCATCACTGATTTTTTGGCCGGAAATAAATTCACTTCCGGCCTGAGAAAATAATTCAATAAGGTCTTTTCTTAATGTTGACCGCATGTCTTCAGCCACTCCTCTATGTGTTTCTTTTGATTGGAGAGCTTTCCTGTCACAACAGCCTGCTCGATCC  >  CP006881/2173568‑2173817

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A