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
A2 F1 I0 R1 4577 57.4 3436498 77.7% 2670158 63.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,092,051 G→A 33.6% N9N (AAC→AAT)  sufA ← Fe‑S cluster assembly protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,092,0510GA33.6% 71.1 / 47.2 89N9N (AAC→AAT) sufAFe‑S cluster assembly protein
Reads supporting (aligned to +/- strand):  ref base G (25/34);  new base A (18/12);  total (43/46)
Fisher's exact test for biased strand distribution p-value = 1.25e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 105 total aligned reads displayed.

GGATGTGTATCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCGTATAACAGCA  >  minE/1091993‑1092116
                                                          |                                                                 
ggATGTGTATCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGtt                                                          <  1:1033213/68‑1 (MQ=255)
ggATGTGTATCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGtt                                                          <  1:2648815/68‑1 (MQ=255)
ggATGTGTATCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGtt                                                          <  1:2774617/68‑1 (MQ=255)
ggATGTGTATCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGtt                                                          <  1:2231478/68‑1 (MQ=255)
ggATGTGTATCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGtt                                                          <  1:3168946/68‑1 (MQ=255)
ggATGTGTATCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGtt                                                          <  1:3232542/68‑1 (MQ=255)
ggATGTGTATCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGtt                                                          <  1:3289664/68‑1 (MQ=255)
ggATGTGTATCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGtt                                                          <  1:1721690/68‑1 (MQ=255)
ggATGTGTATCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGtt                                                          <  1:1073600/68‑1 (MQ=255)
ggATGTGTATCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGtt                                                          <  1:970256/68‑1 (MQ=255)
ggATGTGTATCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGtt                                                          <  1:962885/68‑1 (MQ=255)
   tgtgTATCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTg                                                      <  1:1556398/69‑1 (MQ=255)
   tgtgTATCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTg                                                      <  1:3011813/69‑1 (MQ=255)
   tgtgTATCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTAAAAGGTTCCTg                                                      <  1:1927174/69‑1 (MQ=255)
     tgtATCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGaa                                                    >  1:3147713/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCa                                                >  1:1701117/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCa                                                >  1:1565559/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCa                                                >  1:1542195/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCa                                                >  1:1181712/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCa                                                >  1:2143095/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCa                                                >  1:501191/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCa                                                >  1:2283860/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCa                                                >  1:289289/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCa                                                >  1:612699/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCa                                                >  1:3268834/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCa                                                >  1:860516/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTACCTGAATGCa                                                >  1:2019976/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGc                                                 >  1:1139326/1‑68 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCa                                                >  1:3140433/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCa                                                >  1:3087789/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCa                                                >  1:2398164/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCa                                                >  1:1964487/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCa                                                >  1:268883/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCa                                                >  1:1227267/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCa                                                >  1:1174483/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCa                                                >  1:1632248/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCa                                                >  1:1632018/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCa                                                >  1:3310958/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCa                                                >  1:3433678/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCa                                                >  1:837852/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCa                                                >  1:1468163/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCa                                                >  1:515538/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCa                                                >  1:523981/1‑69 (MQ=255)
         tCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCa                                                >  1:1309899/1‑69 (MQ=255)
         tCGACGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCTTg                                                      >  1:1916789/1‑63 (MQ=255)
           gccgcTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCATg                                              <  1:1043241/69‑1 (MQ=255)
           gccgcTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCATg                                              <  1:822712/69‑1 (MQ=255)
           gccgcTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCATg                                              <  1:278953/69‑1 (MQ=255)
           gccgcTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCATg                                              <  1:2989846/69‑1 (MQ=255)
           gccgcTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCATg                                              <  1:3434510/69‑1 (MQ=255)
           gccgcTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCATg                                              <  1:3017047/69‑1 (MQ=255)
           gccgcTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCATg                                              <  1:3290685/69‑1 (MQ=255)
           gccgcTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCATg                                              <  1:1088154/69‑1 (MQ=255)
           gccgcTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCATg                                              <  1:2486050/69‑1 (MQ=255)
           gccgcTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCATg                                              <  1:1276355/69‑1 (MQ=255)
           gccgcTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCATg                                              <  1:1541108/69‑1 (MQ=255)
           gccgcTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCCTGTGGATTAAAGGTTCCTGAATGCATg                                              <  1:2300895/69‑1 (MQ=255)
                 gCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTg                                                      <  1:1233415/55‑1 (MQ=255)
                    ggTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCg                                       <  1:378698/67‑1 (MQ=255)
                    ggTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCg                                       <  1:146927/67‑1 (MQ=255)
                    ggTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGa                                      <  1:2631588/68‑1 (MQ=255)
                    ggTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGa                                      <  1:1398041/68‑1 (MQ=255)
                    ggTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGa                                      <  1:1437552/68‑1 (MQ=255)
                    ggTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGa                                      <  1:2116708/68‑1 (MQ=255)
                    ggTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGa                                      <  1:2125424/68‑1 (MQ=255)
                    ggTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGa                                      <  1:3065057/68‑1 (MQ=255)
                      tgtCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGAttt                                   >  1:2229205/1‑69 (MQ=255)
                      tgtCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGAttt                                   >  1:2803786/1‑69 (MQ=255)
                      tgtCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGAtt                                    >  1:2014113/1‑68 (MQ=255)
                                aaGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTc                         >  1:2229507/1‑69 (MQ=255)
                                aaGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTc                         >  1:1951808/1‑69 (MQ=255)
                                aaGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTc                         >  1:2372524/1‑69 (MQ=255)
                                aaGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTc                         >  1:1780951/1‑69 (MQ=255)
                                   ccTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCAt                       <  1:397483/68‑1 (MQ=255)
                                   ccTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCAt                       <  1:1196433/68‑1 (MQ=255)
                                   ccTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCAt                       <  1:1270882/68‑1 (MQ=255)
                                   ccTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCAt                       <  1:745832/68‑1 (MQ=255)
                                   ccTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCAt                       <  1:577561/68‑1 (MQ=255)
                                   ccTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCAt                       <  1:2380513/68‑1 (MQ=255)
                                   ccTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCAt                       <  1:1484978/68‑1 (MQ=255)
                                   ccTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCAt                       <  1:2184485/68‑1 (MQ=255)
                                             cGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGc             >  1:2694303/1‑68 (MQ=255)
                                             cGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCg            >  1:414956/1‑69 (MQ=255)
                                             cGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCg            >  1:2752177/1‑69 (MQ=255)
                                                        gggTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCGTATAACAGCa  <  1:128606/68‑1 (MQ=255)
                                                        gggTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCGTATAACAGCa  <  1:2589896/68‑1 (MQ=255)
                                                        gggTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCGTATAACAGCa  <  1:1106204/68‑1 (MQ=255)
                                                        gggTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCGTATAACAGCa  <  1:890822/68‑1 (MQ=255)
                                                        gggTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCGTATAACAGCa  <  1:3044961/68‑1 (MQ=255)
                                                        gggTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCGTATAACAGCa  <  1:2465950/68‑1 (MQ=255)
                                                        gggTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCGTATAACAGCa  <  1:2929357/68‑1 (MQ=255)
                                                        gggTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCGTATAACAGCa  <  1:760539/68‑1 (MQ=255)
                                                        gggTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCGTATAACAGCa  <  1:2357447/68‑1 (MQ=255)
                                                        gggTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCGTATAACAGCa  <  1:517323/68‑1 (MQ=255)
                                                        gggTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCGTATAACAGCa  <  1:287201/68‑1 (MQ=255)
                                                        gggTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCGTATAACAGCa  <  1:455626/68‑1 (MQ=255)
                                                        gggTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCGTATAACAGCa  <  1:3165112/68‑1 (MQ=255)
                                                        gggTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCGTATAACAGCa  <  1:1859652/68‑1 (MQ=255)
                                                        gggTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCGTATAACAGCa  <  1:1442795/68‑1 (MQ=255)
                                                        gggTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCGTATAACAGCa  <  1:2809210/68‑1 (MQ=255)
                                                          |                                                                 
GGATGTGTATCGCCGCTGCGGGTGTCAGCGTTAAGCCTTGCCAGGCGAAATCTTGTGGGTTAAAGGTTCCTGAATGCATGTCCATCGATTTACCTCACTTCATCGCTTTCAGCGTATAACAGCA  >  minE/1091993‑1092116

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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