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 1,933,270 A→C 39.8% T391T (ACT→ACG)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,933,2700AC39.8% 52.0 / 144.0 118T391T (ACT→ACG) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base A (32/39);  new base C (27/20);  total (59/59)
Fisher's exact test for biased strand distribution p-value = 2.59e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 119 total aligned reads displayed.

AGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCA  >  minE/1933203‑1933340
                                                                   |                                                                      
aacggtcggtGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTa                                                                     <  1:2695751/69‑1 (MQ=255)
aGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTa                                                                     <  1:5057228/71‑1 (MQ=255)
aGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTa                                                                     <  1:4494449/71‑1 (MQ=255)
 gCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTaa                                                                    >  1:2623724/1‑71 (MQ=255)
  cGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAAt                                                                   <  1:2902075/71‑1 (MQ=255)
        gtgATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGt                                                             >  1:4739304/1‑71 (MQ=255)
         tgATTTCCGGGTTAACGTCGTTACGACGCGCAAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTc                                                            >  1:4597413/1‑71 (MQ=255)
         tgATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGtt                                                            <  1:310383/71‑2 (MQ=255)
                 gggTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGa                                                      <  1:3645299/69‑1 (MQ=255)
                   gTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAAt                                                    >  1:5534655/1‑69 (MQ=255)
                   gTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCa                                                  <  1:4157015/71‑1 (MQ=255)
                   gTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCa                                                  <  1:5486266/71‑1 (MQ=255)
                    ttAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAg                                                 <  1:5676097/71‑1 (MQ=255)
                    ttAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAg                                                 <  1:2243293/71‑1 (MQ=255)
                      aaCGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGa                                                <  1:1599594/70‑1 (MQ=255)
                      aaCATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGaa                                                     >  1:5617751/1‑65 (MQ=255)
                      aaCATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGaa                                                     >  1:1530850/1‑65 (MQ=255)
                      aaCATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAGAt                                               >  1:4055516/1‑71 (MQ=255)
                        cgtcgtTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATg                                                                  <  1:3767432/50‑1 (MQ=255)
                        cgtcgtTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATg                                                                  <  1:2597515/50‑1 (MQ=255)
                          tcattACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAGa                                                >  1:5360930/4‑66 (MQ=255)
                          tcattACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAGAtg                                              <  1:2922824/65‑1 (MQ=255)
                            gtTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCtt                                         >  1:2449454/1‑71 (MQ=255)
                            attACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAg                                                               >  1:4785117/2‑49 (MQ=19)
                            attACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAg                                                               >  1:580606/2‑49 (MQ=19)
                            attACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGtt                                                            >  1:4030066/2‑51 (MQ=19)
                            attACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAGATGTGCtt                                         <  1:187248/70‑1 (MQ=255)
                             ttACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATaaa                                                                <  1:2350342/47‑1 (MQ=19)
                             ttACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGttg                                                           <  1:3570228/52‑3 (MQ=19)
                             ttACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAGATGTGCTTc                                        >  1:2088010/1‑71 (MQ=255)
                              tACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCa                                                  <  1:40475/60‑1 (MQ=255)
                               acggcgTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGttg                                                           >  1:2387713/1‑48 (MQ=19)
                               acggcgTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAGATGTGCTTCTg                                      >  1:3141325/1‑71 (MQ=255)
                                 gacgCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGcc                                    <  1:3442001/71‑1 (MQ=255)
                                   cgcgCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCAc                                  <  1:2829183/71‑1 (MQ=255)
                                    gcgcCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAAt                                                    <  1:5121648/52‑1 (MQ=255)
                                      gcCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCActtc                               >  1:4819275/1‑71 (MQ=255)
                                       ccAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAGATGTGCTTCTGCCActtca                              >  1:5224330/1‑70 (MQ=255)
                                       ccAGCGGGGACACTTCTGCCGGAGATTCCGTAATAAAGGTTGGCTg                                                       >  1:2226820/1‑46 (MQ=255)
                                       ccAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCActtct                              >  1:243279/1‑71 (MQ=255)
                                        cAGCGGGGACACTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAGATGTGCtt                                         <  1:366448/59‑1 (MQ=255)
                                          gCGGAGAAACTTCTGCCGGATATTCAGTAATGAAgg                                                              >  1:2318334/1‑36 (MQ=255)
                                          gCGGAGAAACTTCTGCCGGATATTCAGTAATGAAgg                                                              >  1:3758930/1‑36 (MQ=255)
                                          gCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCg                           <  1:4607680/71‑1 (MQ=255)
                                          gCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCg                           <  1:934750/71‑1 (MQ=255)
                                           cGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGcc                                    <  1:336913/61‑1 (MQ=255)
                                             gagaAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCAc                                  >  1:2806325/1‑61 (MQ=255)
                                               gaAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGc                                           <  1:1816081/50‑1 (MQ=255)
                                               gaAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGAt                      <  1:1459244/71‑1 (MQ=255)
                                                aaaCTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGAtc                     <  1:3332629/71‑1 (MQ=255)
                                                 caCTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAGa                                                >  1:4206593/2‑43 (MQ=25)
                                                 aaCTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGAtct                    >  1:4452494/1‑71 (MQ=255)
                                                  aCTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGaa                                                     >  1:686656/1‑37 (MQ=25)
                                                  aCTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGAtctc                   >  1:3067115/1‑71 (MQ=255)
                                                   cTTCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAGATGTGc                                           <  1:2199425/46‑1 (MQ=37)
                                                   cTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAg                        <  1:5651827/65‑1 (MQ=255)
                                                   cTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAg                        <  1:157479/65‑1 (MQ=255)
                                                   cTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAg                        <  1:125500/65‑1 (MQ=255)
                                                    ttCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAGATGTGc                                           <  1:4701199/45‑1 (MQ=38)
                                                    ttCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAGATGTGc                                           <  1:4661222/45‑1 (MQ=38)
                                                    ttCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAGATGTGCTTCTGCCACTTCATCaaa                         >  1:4159003/1‑63 (MQ=255)
                                                    ttCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGAtctctg                 >  1:1675878/1‑69 (MQ=255)
                                                    ttCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGa                                                >  1:2596696/1‑40 (MQ=255)
                                                    ttCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGAt                                               >  1:3007052/1‑41 (MQ=255)
                                                    ttCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGAt                                               >  1:3000191/1‑41 (MQ=255)
                                                    ttCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGAt                                               >  1:5221359/1‑41 (MQ=255)
                                                    ttCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCgg                 >  1:659157/1‑71 (MQ=255)
                                                    ttCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCgg                 >  1:746224/1‑71 (MQ=255)
                                                     tCTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAGATGTGCtt                                         >  1:1080521/1‑46 (MQ=255)
                                                     tCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGAt                      >  1:3369534/1‑65 (MQ=255)
                                                     tCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGAt                      >  1:5461863/1‑65 (MQ=255)
                                                     tCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGAt                      >  1:2316289/1‑65 (MQ=255)
                                                      cTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAGAt                                               >  1:1123035/1‑39 (MQ=37)
                                                      cTGCCGGATATTCCGTAATAAAGGTTGGCTGAATCAGAt                                               >  1:1191669/1‑39 (MQ=37)
                                                      cTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGt                >  1:1264060/1‑70 (MQ=255)
                                                         ccGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAAc             <  1:4175604/70‑1 (MQ=255)
                                                         ccGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAAc             <  1:2198002/70‑1 (MQ=255)
                                                         ccGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAAc             <  1:5257695/70‑1 (MQ=255)
                                                         ccGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAAc             <  1:5251145/70‑1 (MQ=255)
                                                         ccGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAAc             <  1:3331715/70‑1 (MQ=255)
                                                         ccGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACg            <  1:2950561/71‑1 (MQ=255)
                                                          cGGATATTCCGTAATAAAGGTTGGCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGAcaa           <  1:3931061/71‑3 (MQ=255)
                                                          cGGATATTCCGTAATAAAGGTTGGCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGAcaa           <  1:1224416/71‑3 (MQ=255)
                                                          cGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGa           <  1:688790/71‑1 (MQ=255)
                                                           ggATATTCCGTAATAAAGGTTGGCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGACAAt          <  1:2151697/71‑1 (MQ=255)
                                                           ggATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGa                          <  1:2303409/55‑1 (MQ=255)
                                                           ggATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGAt          <  1:4125749/71‑1 (MQ=255)
                                                             atatTCCGTAATAAAGGTTGGCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGACAATAc        >  1:5397678/1‑71 (MQ=255)
                                                             atatTCCGTAATAAAGGTTGGCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGACAATAc        <  1:1503976/71‑1 (MQ=255)
                                                             atatTCCGTAATAAAGGTTGGCTGAATCAGATGTGCTTCTGCCACTTCATCAAAGATCTCTGTGACAATAc        >  1:2914735/1‑71 (MQ=255)
                                                               atTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGaa                         >  1:1627492/1‑52 (MQ=255)
                                                                ttCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGAt          <  1:3361860/66‑1 (MQ=255)
                                                                ttCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGAt          <  1:248214/66‑1 (MQ=255)
                                                                 tCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCt                                       >  1:3963131/1‑36 (MQ=255)
                                                                 tCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGa                          <  1:2718328/49‑1 (MQ=255)
                                                                 tCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGa                          <  1:5684663/49‑1 (MQ=255)
                                                                 tCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGcc    >  1:3587386/1‑71 (MQ=255)
                                                                 tCAGTAATGAAGGTCGGATGAATCAGATGTGCTTCTGCCACTTCTTCGa                          <  1:3886211/49‑1 (MQ=255)
                                                                  cAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCg                  >  1:4408036/1‑56 (MQ=255)
                                                                  cAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGcc    >  1:1606530/1‑70 (MQ=255)
                                                                   |                                                                      
AGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGAAGGTCGGCTGAATCAGATGTGCTTCTGCCACTTCTTCGAAGATCTCGGTAACGATACGGCCCA  >  minE/1933203‑1933340

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