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 I0 R1 2892 75.3 5698161 66.1% 3766484 59.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 2,919,210 T→C 26.3% A162A (GCA→GCG)  argI ← ornithine carbamoyltransferase 1

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,919,2100TC26.3% 190.0 / 73.0 118A162A (GCA→GCG) argIornithine carbamoyltransferase 1
Reads supporting (aligned to +/- strand):  ref base T (35/52);  new base C (15/16);  total (50/68)
Fisher's exact test for biased strand distribution p-value = 5.26e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 119 total aligned reads displayed.

AAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGC  >  minE/2919145‑2919278
                                                                 |                                                                    
agaTCCAGCCCGGTCAGCGCCGCCGCTTCCAGCATCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGcg                                                                   >  1:5596632/3‑68 (MQ=255)
aaaTCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCa                                                                   >  1:1247361/1‑69 (MQ=255)
    ccAGCCCGGTCAGCGCCGCCGCTTCCAGCATCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGCGTAGAc                                                              >  1:4885901/1‑70 (MQ=255)
     cAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGAcc                                                             <  1:445215/70‑1 (MQ=255)
     cAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCa                                                            <  1:4250852/71‑1 (MQ=255)
      aGACCGGTAAGCGCCGCAGCTTCGAGGATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAg                                                                <  1:2021795/66‑1 (MQ=255)
      aGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAg                                                                <  1:1841464/66‑1 (MQ=255)
      aGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAg                                                           >  1:2108848/1‑71 (MQ=255)
        aCCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCg                                                         <  1:4957157/71‑1 (MQ=255)
         ccGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCg                                                         <  1:4517453/70‑1 (MQ=255)
           ggTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCa                                                      <  1:1348139/71‑1 (MQ=255)
            gtcaGCGCCGCCGCTTCCAGCATCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGt                                                        <  1:1107373/65‑1 (MQ=255)
            gtcaGCGCCGCCGCTTCCAGCATCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGt                                                        <  1:2424723/65‑1 (MQ=255)
             tcaGCGCCGCCGCTTCCAGCATCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCAtc                                                    >  1:2944657/3‑70 (MQ=255)
               aGCGCCGCCGCTTCCAGCATCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCAtctc                                                  <  1:792831/71‑1 (MQ=255)
               aGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTc                                                  >  1:826624/1‑71 (MQ=255)
                  gccgcAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTc                                                  <  1:851775/68‑1 (MQ=255)
                  gccgcAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGtt                                               >  1:1749934/1‑71 (MQ=255)
                   ccgccgCTTCCAGCATCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGtta                                              <  1:4529423/71‑2 (MQ=255)
                    cgccgcTTCCAGCATCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGtta                                              <  1:2074957/70‑2 (MQ=255)
                     gcAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGaa                                            <  1:4850436/71‑1 (MQ=255)
                         cTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCt                                        <  1:3830421/71‑1 (MQ=255)
                         cTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCt                                        <  1:3143561/71‑1 (MQ=255)
                         cTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCt                                        <  1:5233290/71‑1 (MQ=255)
                         cTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCt                                        <  1:4436257/71‑1 (MQ=255)
                         cTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGGCAt                                                     <  1:3973324/58‑1 (MQ=255)
                            ccaGCATCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTg                                     >  1:3993969/3‑71 (MQ=255)
                            cGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTg                                     >  1:659017/1‑71 (MQ=255)
                             gAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGc                                    >  1:4409404/1‑71 (MQ=255)
                             gAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACAAGCGTCATTTCGTTGAACGATTTGc                                    >  1:2598751/1‑71 (MQ=255)
                             caGCATCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTga                                    >  1:3453267/2‑70 (MQ=255)
                              aGCATCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGtta                                              <  1:20650/60‑2 (MQ=255)
                              aGCATCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGc                                    <  1:3308479/70‑1 (MQ=255)
                              aGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGcc                                   <  1:3209364/71‑1 (MQ=255)
                               gCATCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGcg                                                                   <  1:3255058/38‑2 (MQ=16)
                                 aTCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCcgg                                <  1:4243788/71‑1 (MQ=255)
                                  tCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCa                                                            >  1:5395084/1‑42 (MQ=16)
                                  tCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCcgg                                >  1:5584906/1‑70 (MQ=255)
                                  tCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAg                                                                <  1:4465935/38‑1 (MQ=255)
                                  tCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAg                                                                <  1:510150/38‑1 (MQ=255)
                                  tCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAg                                                                <  1:2038924/38‑1 (MQ=255)
                                  tCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCttt                                      <  1:4486841/64‑1 (MQ=255)
                                  tCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCttt                                      <  1:921967/64‑1 (MQ=255)
                                  tCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCttt                                      <  1:1921360/64‑1 (MQ=255)
                                   cGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCAttt                                                   >  1:4466983/1‑50 (MQ=255)
                                   cGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCAttt                                                   >  1:4026614/1‑50 (MQ=255)
                                    gagttGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCcgg                                >  1:1837444/4‑68 (MQ=255)
                                    gagttGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCcgg                                >  1:4565363/4‑68 (MQ=255)
                                    gagttGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCcgg                                >  1:2192853/4‑68 (MQ=255)
                                    gAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGaa                                            >  1:4046558/1‑56 (MQ=255)
                                    gAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGaa                                            >  1:2783816/1‑56 (MQ=255)
                                    gAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCa                              <  1:4625081/70‑1 (MQ=255)
                                    gAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCa                              >  1:4089195/1‑70 (MQ=255)
                                     aaTTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTg                                              <  1:1329905/53‑1 (MQ=255)
                                      aTTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAAt                           >  1:1202170/1‑71 (MQ=255)
                                      aTTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAAt                           >  1:3432057/1‑71 (MQ=255)
                                       ttGCCCATGTTGTTACGCGGGTCACCTGCATAGACCAGCGTCATTTCGtt                                               <  1:2024114/50‑1 (MQ=255)
                                       ttGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGtt                                               <  1:1552780/50‑1 (MQ=255)
                                       ttGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGtt                                               <  1:3869899/50‑1 (MQ=255)
                                         gCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGc                         <  1:181489/70‑1 (MQ=255)
                                         gCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGc                         <  1:3273038/70‑1 (MQ=255)
                                         gCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGc                         <  1:3308099/70‑1 (MQ=255)
                                         gCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCt                        >  1:5246231/1‑71 (MQ=255)
                                          cccATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTc                       <  1:5137429/71‑1 (MQ=255)
                                           ccATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTc                                                       <  1:1916129/38‑1 (MQ=16)
                                           ccATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTc                                                       <  1:691142/38‑1 (MQ=16)
                                            cATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTc                                                       <  1:1559139/37‑1 (MQ=16)
                                            cATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCt                     <  1:1725906/71‑1 (MQ=255)
                                             aTGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCgg                                 <  1:760622/58‑1 (MQ=255)
                                              tgttgtTACGCGCGTCACCTGCATAGACCAGCGTCATTTc                                                  <  1:4227771/40‑1 (MQ=255)
                                              tgttgtTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTg                                              <  1:708782/44‑1 (MQ=255)
                                              tgttgtTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGc                                         <  1:5447560/49‑1 (MQ=255)
                                              tgttgtTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGcc                                   <  1:2221004/55‑1 (MQ=255)
                                              tgttgtTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTc                       <  1:4580676/67‑1 (MQ=255)
                                              tgttgtTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTc                       <  1:5407096/67‑1 (MQ=255)
                                              tgttgtTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTg                    >  1:4613013/1‑70 (MQ=255)
                                              tgttgtTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGc                   <  1:2808378/71‑1 (MQ=255)
                                               gttgttACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGa                                             <  1:2684960/44‑1 (MQ=255)
                                               gttgttACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGa                                             <  1:759527/44‑1 (MQ=255)
                                                ttgttACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCaaa                            >  1:3554266/1‑60 (MQ=255)
                                                ttgttACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTc                       >  1:4593094/1‑65 (MQ=255)
                                                ttgttACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTc                       >  1:1514884/1‑65 (MQ=255)
                                                ttgttACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCa                  <  1:5141844/70‑1 (MQ=255)
                                                 tgttGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATg                >  1:911300/1‑71 (MQ=255)
                                                 tgttGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATg                >  1:2632796/1‑71 (MQ=255)
                                                 tgttGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATg                >  1:3016110/1‑71 (MQ=255)
                                                 tgttACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCgg                                 <  1:373920/54‑1 (MQ=255)
                                                  gttGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCt                        >  1:647392/1‑62 (MQ=255)
                                                    tACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATg                >  1:2044921/1‑68 (MQ=255)
                                                    tACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATg                >  1:4202588/1‑68 (MQ=255)
                                                    tACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGt              >  1:3598803/1‑70 (MQ=255)
                                                     gcgcgcaTCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATGGtca            >  1:650508/2‑69 (MQ=255)
                                                      cgcgcaTCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATGGtca            <  1:846672/70‑3 (MQ=255)
                                                       gcgcgTCACGTGCATAGACCAGCGTCATTTCGTTGTACGCt                                        <  1:3950997/41‑1 (MQ=38)
                                                        cgcaTCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGc                   <  1:4367059/61‑1 (MQ=255)
                                                           gTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTgag           >  1:5313960/1‑66 (MQ=255)
                                                           gTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGAt      <  1:4850782/71‑1 (MQ=255)
                                                             cACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTg                    <  1:3114670/55‑1 (MQ=255)
                                                             cACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATcc    >  1:2351368/1‑71 (MQ=255)
                                                              aCCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCg   >  1:1206329/1‑71 (MQ=255)
                                                                 |                                                                    
AAATCCAGACCGGTAAGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGC  >  minE/2919145‑2919278

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A