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 1,934,224 G→T 32.7% R73R (CGC→CGA)  lysS ← lysine tRNA synthetase, constitutive

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,934,2240GT32.7% 164.7 / 75.6 104R73R (CGC→CGA) lysSlysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand):  ref base G (39/31);  new base T (20/14);  total (59/45)
Fisher's exact test for biased strand distribution p-value = 8.35e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.91e-01

Only 100 of 106 total aligned reads displayed.

TGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTTTGCCGTCGAATTCTGCGT  >  minE/1934156‑1934294
                                                                    |                                                                      
tGAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCg                                                                      >  1:65613/1‑71 (MQ=255)
 gAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCgg                                                                     >  1:2526588/1‑71 (MQ=255)
 gAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCgg                                                                     >  1:2287907/1‑71 (MQ=255)
 gAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCg                                                                      >  1:1549295/1‑70 (MQ=255)
 gAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCg                                                                      <  1:3245899/70‑1 (MQ=255)
  aaTACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCgg                                                                     <  1:4012404/70‑1 (MQ=255)
  aaTACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCg                                                                      <  1:4738092/69‑1 (MQ=255)
      cGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAg                                                                 >  1:4926516/1‑70 (MQ=255)
      cGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAg                                                                 >  1:1058439/1‑70 (MQ=255)
      cGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAg                                                                 >  1:3759086/1‑70 (MQ=255)
           gCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCaa                                                              >  1:4279799/1‑68 (MQ=255)
           gCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCaa                                                              >  1:932022/1‑68 (MQ=255)
           gCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCaa                                                              >  1:5591560/1‑68 (MQ=255)
            ccAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACgg                                                           >  1:1209557/1‑70 (MQ=255)
            ccAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGc                                                          <  1:587097/71‑1 (MQ=255)
              aaCGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGc                                                                <  1:3508765/63‑1 (MQ=255)
                cGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACg                                                            >  1:5157556/1‑65 (MQ=255)
                cGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACg                                                            >  1:5169788/1‑65 (MQ=255)
                 atCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCGGCCAGCAAcc                                                            <  1:234300/63‑2 (MQ=255)
                 atCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCGGCCAGCAAcc                                                            <  1:4339776/63‑2 (MQ=255)
                 atCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCGGCCAGCAAcc                                                            <  1:5623845/63‑2 (MQ=255)
                   ccTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCGGCCAGCAAcc                                                            <  1:3715333/62‑2 (MQ=255)
                    cTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTca                                                   <  1:3961549/70‑2 (MQ=255)
                     tGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGa                                                  >  1:5539454/1‑70 (MQ=255)
                          ggTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCa                                            <  1:5377813/71‑1 (MQ=255)
                            tAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGc                                                                >  1:5176971/1‑49 (MQ=255)
                            tAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGc                                                                >  1:4153184/1‑49 (MQ=255)
                             aaCGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAgcg                                         >  1:4978297/1‑71 (MQ=255)
                               cGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCaa                                                              >  1:1099062/1‑48 (MQ=255)
                               cGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCaa                                                              >  1:810261/1‑48 (MQ=255)
                                 aaaGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTc                                     >  1:3316697/1‑71 (MQ=255)
                                  aaGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTcc                                    <  1:2878285/71‑1 (MQ=255)
                                     aggCTTTCCCCATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGTTTAAGGATTCCAGt                                 <  1:4023622/69‑1 (MQ=255)
                                      ggCTTTCCCCATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGTTTAAGGATTCCAGtt                                >  1:4066856/2‑71 (MQ=255)
                                       gCTTTCCCCATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGttt                                             <  1:2252670/57‑2 (MQ=255)
                                       gCTTTCCCCATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGTTTAAGGATTCCAGttc                               >  1:2613270/1‑71 (MQ=255)
                                         tttCCCCATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGTTTAAGGATTCCAGttcct                             >  1:3144320/1‑69 (MQ=255)
                                         tttACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGtt                                              <  1:1295208/54‑1 (MQ=255)
                                           tACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGttcttc                            <  1:2759822/70‑1 (MQ=255)
                                            aCCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCg                           <  1:776813/70‑1 (MQ=255)
                                             cccATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGttta                                            >  1:3140687/1‑50 (MQ=255)
                                             cccATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGttta                                            >  1:5115961/1‑50 (MQ=255)
                                             cccATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGttta                                            >  1:3147290/1‑50 (MQ=255)
                                             cccATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGtt                         <  1:4873818/71‑1 (MQ=255)
                                              ccATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGttt                                             >  1:4348514/1‑49 (MQ=255)
                                              ccATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGttt                                             >  1:4023336/1‑49 (MQ=255)
                                              ccATAATACGACGGGTCATCATGCGGCCAGCAACGGCGa                                                        >  1:3181525/1‑39 (MQ=255)
                                               cATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGt                                               <  1:903255/47‑1 (MQ=255)
                                               cATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCtt                                      >  1:4280273/1‑56 (MQ=255)
                                               cATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTtct                       <  1:321230/71‑1 (MQ=255)
                                               cATAATACGACGGGTCATCATGCGGCCAGCAACCGCGACTTCGATGt                                               <  1:4577549/47‑1 (MQ=255)
                                                 taataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTc                                     <  1:2739660/55‑1 (MQ=255)
                                                 taataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTc                                     <  1:2634463/55‑1 (MQ=255)
                                                 taataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTc                                     <  1:2608632/55‑1 (MQ=255)
                                                 taataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGtt                         <  1:1588650/67‑1 (MQ=255)
                                                 taataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTctct                     >  1:2161738/1‑71 (MQ=255)
                                                  aataCGACGGGTCATCATGCGGCCAGCAACGGCGa                                                        >  1:2908312/1‑35 (MQ=255)
                                                  aataCGACGGGTCATCATGCGGCCAGCAACGGCGa                                                        >  1:5406354/1‑35 (MQ=255)
                                                  aataCGACGGGTCATCATGCGGCCAGCAACGGCGa                                                        >  1:699434/1‑35 (MQ=255)
                                                  aataCGACGGGTCATCATGCGGCCAGCAACGGCGa                                                        >  1:2969353/1‑35 (MQ=255)
                                                  aataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCtt                    >  1:386593/1‑71 (MQ=255)
                                                  aataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCtt                    >  1:740975/1‑71 (MQ=255)
                                                   ataCGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGTTTAAGGATTCCAGTTCCTGGTTATCctt                   >  1:435370/1‑71 (MQ=255)
                                                   ataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGa                                                  >  1:1455992/1‑40 (MQ=255)
                                                   ataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCttt                   >  1:5287180/1‑71 (MQ=255)
                                                   ataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCttt                   <  1:846781/71‑1 (MQ=255)
                                                   ataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCttt                   >  1:2285625/1‑71 (MQ=255)
                                                   ataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCttt                   >  1:3534875/1‑71 (MQ=255)
                                                    taCGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGTTTAAGGATTCCAGTTCCTGGTTATCcttc                  >  1:5462633/1‑70 (MQ=255)
                                                    taCGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGTTTAAGGATTCCAGTTCCTGGTTATCcttc                  >  1:666016/1‑70 (MQ=255)
                                                      cgacgGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCa                                   <  1:5205759/52‑1 (MQ=255)
                                                      cgacgGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTTTGcc                <  1:2983383/71‑1 (MQ=255)
                                                      cgacgGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTTTGc                 <  1:4796101/70‑1 (MQ=255)
                                                      cgacgGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTTTGc                 <  1:3307086/70‑1 (MQ=255)
                                                          gggTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTTTGCCGTCg            <  1:3866528/71‑1 (MQ=255)
                                                            gTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTTTGCCGTCGaa          <  1:1442612/71‑1 (MQ=255)
                                                              catcatGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGttctt                             <  1:1445814/50‑1 (MQ=255)
                                                              catcatGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTTTGCCGTCGAAt         >  1:618336/1‑70 (MQ=255)
                                                               atcatTCGGCCAGCAACCGAGACTTCAATGTTTAAGGATTCCAGt                                 <  1:4439579/45‑1 (MQ=255)
                                                               atcatGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTTTGCCGTCGAAtt        <  1:686803/70‑1 (MQ=255)
                                                                tcatGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTc                                     <  1:2284141/40‑1 (MQ=255)
                                                                tcatGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTTTGCCGTc             <  1:3931232/64‑1 (MQ=255)
                                                                tcatGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTTTGCCGTCGAATTCt      <  1:4701572/71‑1 (MQ=255)
                                                                taatGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCttt                   >  1:5677460/3‑58 (MQ=255)
                                                                 catTCGGCCAGCAACCGAGACTTCAATGTTTAAGGATTCCAGttcc                              <  1:4904945/46‑2 (MQ=255)
                                                                 catTCGGCCAGCAACCGAGACTTCAATGTTTAAGGATTCCAGttcc                              <  1:5380309/46‑2 (MQ=255)
                                                                 catTCGGCCAGCAACCGAGACTTCAATGTTTAAGGATTCCAGttc                               >  1:1633243/1‑45 (MQ=255)
                                                                 catTCGGCCAGCAACCGAGACTTCAATGTTTAAGGATTCCAGttc                               >  1:4986892/1‑45 (MQ=255)
                                                                 catTCGGCCAGCAACCGAGACTTCAATGTTTAAGGATTCCAGttc                               >  1:4980481/1‑45 (MQ=255)
                                                                 catGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTTTGCCGTCGa           <  1:4416385/65‑1 (MQ=255)
                                                                 catGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTTTGCCGTCGAATTCTg     >  1:4585570/1‑71 (MQ=255)
                                                                  atGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCg                           >  1:5287455/1‑48 (MQ=255)
                                                                  atGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGtt                         >  1:5369954/1‑50 (MQ=255)
                                                                  atGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTTTGCCGTCGAATTCTg     <  1:4031458/70‑1 (MQ=255)
                                                                  atGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTTTGCCGTCGAATTCTg     <  1:923928/70‑1 (MQ=255)
                                                                  atGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTTTGCCGTCGAATTCTGc    >  1:2425460/1‑71 (MQ=255)
                                                                  atGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCCTCCAGTTCTTCGTTCTCTTTGCCGTCGAATTCTg     <  1:4652666/70‑1 (MQ=255)
                                                                  atGAGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCg                           >  1:4521076/1‑48 (MQ=255)
                                                                    gCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTTTGCCGTCGAATTCTGCGt  >  1:4291881/1‑71 (MQ=255)
                                                                    gCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTTTGCCGTCGAATTCTGCGt  >  1:17456/1‑71 (MQ=255)
                                                                    |                                                                      
TGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTTTGCCGTCGAATTCTGCGT  >  minE/1934156‑1934294

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