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 2,919,228 T→C 22.9% E156E (GAA→GAG)  argI ← ornithine carbamoyltransferase 1

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,919,2280TC22.9% 218.8 / 64.8 122E156E (GAA→GAG) argIornithine carbamoyltransferase 1
Reads supporting (aligned to +/- strand):  ref base T (40/54);  new base C (14/14);  total (54/68)
Fisher's exact test for biased strand distribution p-value = 5.21e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.57e-01

Only 100 of 131 total aligned reads displayed.

AGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGG  >  minE/2919160‑2919297
                                                                    |                                                                     
aGCGCCGCCGCTTCCAGCATCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCAtctc                                                                     <  1:792831/71‑1 (MQ=255)
aGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTc                                                                     >  1:826624/1‑71 (MQ=255)
aGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTc                                                                     >  1:813929/1‑71 (MQ=255)
   gccgcAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGtt                                                                  >  1:1749934/1‑71 (MQ=255)
    ccgccgCTTCCAGCATCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGtta                                                                 <  1:4529423/71‑2 (MQ=255)
     cgccgcTTCCAGCATCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGtta                                                                 <  1:2074957/70‑2 (MQ=255)
          cTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCt                                                           <  1:3143561/71‑1 (MQ=255)
          cTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCt                                                           <  1:4436257/71‑1 (MQ=255)
          cTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCt                                                           <  1:5233290/71‑1 (MQ=255)
             cGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTg                                                        >  1:659017/1‑71 (MQ=255)
             cGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTg                                                        >  1:3881427/1‑71 (MQ=255)
              gAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGc                                                       >  1:2560428/1‑71 (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)
                  aTCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCcgg                                                   <  1:5507909/71‑1 (MQ=255)
                  aTCGAGTTGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCcgg                                                   <  1:4243788/71‑1 (MQ=255)
                   tCGAATTGCCCGTGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCggg                                                   >  1:4874228/1‑70 (MQ=255)
                   tCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCttt                                                         <  1:1921360/64‑1 (MQ=255)
                   tCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCttt                                                         <  1:921967/64‑1 (MQ=255)
                   tCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCttt                                                         <  1:4486841/64‑1 (MQ=255)
                    cGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCAttt                                                                      >  1:4466983/1‑50 (MQ=255)
                    cGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCAttt                                                                      >  1:4026614/1‑50 (MQ=255)
                     gagttGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCcgg                                                   >  1:2192853/4‑68 (MQ=255)
                     gagttGCCCATGTTGTTGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCcgg                                                   >  1:4565363/4‑68 (MQ=255)
                     gAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGaa                                                               >  1:4053313/1‑56 (MQ=255)
                     gAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGaa                                                               >  1:4046558/1‑56 (MQ=255)
                     gAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCa                                                 <  1:4625081/70‑1 (MQ=255)
                      aaTTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTg                                                                 <  1:1329905/53‑1 (MQ=255)
                       aTTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAAt                                              >  1:3432057/1‑71 (MQ=255)
                       aTTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAAt                                              >  1:1202170/1‑71 (MQ=255)
                        ttGCCCATGTTGTTACGCGGGTCACCTGCATAGACCAGCGTCATTTCGtt                                                                  <  1:2024114/50‑1 (MQ=255)
                        ttGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGtt                                                                  <  1:3869899/50‑1 (MQ=255)
                        ttGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGtt                                                                  <  1:1552780/50‑1 (MQ=255)
                         tGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGc                                            >  1:663767/1‑71 (MQ=255)
                          gCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGc                                            <  1:181489/70‑1 (MQ=255)
                          gCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGc                                            <  1:3273038/70‑1 (MQ=255)
                          gCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCt                                           >  1:5246231/1‑71 (MQ=255)
                             cATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCt                                        <  1:1725906/71‑1 (MQ=255)
                              aTGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCgg                                                    <  1:4587879/58‑1 (MQ=255)
                              aTGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCgg                                                    <  1:760622/58‑1 (MQ=255)
                               tgttgtTACGCGCGTCACCTGCATAGACCAGCGTCATTTc                                                                     <  1:4227771/40‑1 (MQ=255)
                               tgttgtTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTc                                          <  1:5407096/67‑1 (MQ=255)
                               tgttgtTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTc                                          <  1:4580676/67‑1 (MQ=255)
                               tgttgtTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTg                                       >  1:4613013/1‑70 (MQ=255)
                               tgttgtTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGc                                      <  1:2808378/71‑1 (MQ=255)
                                gttgttACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGa                                                                <  1:759527/44‑1 (MQ=255)
                                gttgttACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGa                                                                <  1:2684960/44‑1 (MQ=255)
                                 ttgttACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCaaa                                               >  1:3554266/1‑60 (MQ=255)
                                 ttgttACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTc                                          >  1:1514884/1‑65 (MQ=255)
                                 ttgttACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCa                                     <  1:5141844/70‑1 (MQ=255)
                                  tgttGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATg                                   >  1:3016110/1‑71 (MQ=255)
                                  tgttGCGCGCATCGCCCGCGTAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATg                                   >  1:911300/1‑71 (MQ=255)
                                  tgttACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCgg                                                    <  1:373920/54‑1 (MQ=255)
                                  tgttACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCgg                                                    >  1:2894917/1‑54 (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)
                                                   gCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGcc                    <  1:5354942/69‑1 (MQ=255)
                                                   gCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGcc                    <  1:5039536/69‑1 (MQ=255)
                                                    cATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCt                                           <  1:3144619/45‑1 (MQ=255)
                                                     gtAGACCAGCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCcagca                <  1:3256820/70‑1 (MQ=255)
                                                      tAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCcagcag               <  1:200232/71‑1 (MQ=255)
                                                        gACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCa                                     >  1:914893/1‑47 (MQ=255)
                                                        gACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCt             <  1:2168190/71‑1 (MQ=255)
                                                        gACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCt             <  1:5519083/71‑1 (MQ=255)
                                                        gACCAGCGCCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCt             >  1:5551481/1‑71 (MQ=255)
                                                         aCCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTg            >  1:4465203/1‑71 (MQ=255)
                                                          ccAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGc           <  1:3548393/71‑1 (MQ=255)
                                                           cAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGc           <  1:2206133/70‑1 (MQ=255)
                                                           cAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCg          >  1:3087521/1‑71 (MQ=255)
                                                           cAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCg          <  1:2776115/71‑1 (MQ=255)
                                                             gCGTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCTGGGtc        <  1:3738147/71‑2 (MQ=255)
                                                               gTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATGGt                                 >  1:3611139/1‑44 (MQ=16)
                                                               gTCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCTGGGTcgg      <  1:2875392/71‑1 (MQ=255)
                                                                tCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCTGGGTcggg     >  1:958237/1‑70 (MQ=255)
                                                                tCATCTCGTTAAACGCCTTGCCCGGCAGGTGCTCCTGCATGGTCATCAGGTCCGCCAGCAGCTGGGTcggg     <  1:988855/71‑2 (MQ=255)
                                                                  aTTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGAt                         >  1:5114721/1‑49 (MQ=255)
                                                                  aTTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGAt                         >  1:4524402/1‑49 (MQ=255)
                                                                  aTTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGAt    >  1:2937142/1‑70 (MQ=255)
                                                                  aTTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGAt    <  1:3775002/70‑1 (MQ=255)
                                                                  aTTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGAt    >  1:1165251/1‑70 (MQ=255)
                                                                   tttCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTgag                              <  1:3301538/43‑1 (MQ=255)
                                                                   tttCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTgag                              <  1:1933938/43‑1 (MQ=255)
                                                                   tttCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATg   >  1:1521858/1‑70 (MQ=255)
                                                                    ttCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATgg  >  1:2694170/1‑70 (MQ=255)
                                                                    ttCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATgg  >  1:4612318/1‑70 (MQ=255)
                                                                    ttCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATgg  <  1:98710/70‑1 (MQ=255)
                                                                    |                                                                     
AGCGCCGCAGCTTCGAGCATCGAATTGCCCATGTTGTTACGCGCGTCACCTGCATAGACCAGCGTCATTTCGTTGAACGCTTTGCCGGGCAAATGCTCCTGCATGGTGAGAAGATCCGCCAGCAGCTGCGTGGGATGG  >  minE/2919160‑2919297

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