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 1,015,010 C→G 33.7% A353A (GCG→GCC)  fumA ← aerobic Class I fumarate hydratase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,015,0100CG33.7% 98.0 / 75.4 86A353A (GCG→GCC) fumAaerobic Class I fumarate hydratase
Reads supporting (aligned to +/- strand):  ref base C (33/24);  new base G (14/15);  total (47/39)
Fisher's exact test for biased strand distribution p-value = 4.93e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.49e-01

GCGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCT  >  minE/1014943‑1015077
                                                                   |                                                                   
gCGAAAGCTGGGCGAGGATCTCTTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGcc                                                                  >  1:3862539/1‑70 (MQ=255)
 cGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCtt                                                                 <  1:62822/71‑1 (MQ=255)
   aCAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGc                                                                   <  1:3567322/67‑1 (MQ=255)
    cAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTgc                                                              >  1:1127810/1‑71 (MQ=255)
     aaCTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTgcg                                                             <  1:2852920/71‑1 (MQ=255)
      gcTGGGCGAGGATCTCTTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGgcgc                                                            <  1:3847078/70‑1 (MQ=255)
      gcTGGGCGAGGATCTCTTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGgcgc                                                            <  1:4029525/70‑1 (MQ=255)
       cTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTgcg                                                             >  1:5190752/1‑69 (MQ=255)
       cTGGGCGAGGATCTCTTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCa                                                           <  1:5281155/71‑1 (MQ=255)
          tgCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGct                                                        >  1:2447807/1‑71 (MQ=255)
          tgCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGc                                                         <  1:4014522/70‑1 (MQ=255)
            cGAGGATCTCTTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAGttct                                                      <  1:5311474/71‑1 (MQ=255)
             gAGGATCTCTTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAGTTCtt                                                     <  1:2465297/71‑1 (MQ=255)
             gAGGATCTCTTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAGTTCtt                                                     >  1:4719536/1‑71 (MQ=255)
               ggATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTcc                                                   <  1:3887002/71‑1 (MQ=255)
                gATCTCTTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAGTTCttgtg                                                  <  1:3068296/71‑4 (MQ=255)
                gATCTCTTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAGTTCttgtg                                                  <  1:4259137/71‑4 (MQ=255)
                  tctcTTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAGttct                                                      >  1:2350452/1‑65 (MQ=255)
                  tctcTTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAGttct                                                      >  1:2940352/1‑65 (MQ=255)
                    tctTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAg                                                          >  1:5496678/1‑59 (MQ=255)
                    tctTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAg                                                          >  1:4678574/1‑59 (MQ=255)
                      tttCATCGGACGGTTAAGGTCAACGCGCACCTCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCgg                                                 <  1:2311441/66‑1 (MQ=255)
                      tttCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCtt                                                                 <  1:4439401/50‑1 (MQ=255)
                      tttCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCgg                                                 <  1:3736445/66‑1 (MQ=255)
                      tttCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCgg                                                 <  1:1159007/66‑1 (MQ=255)
                      tttCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGata                                             >  1:4984110/1‑70 (MQ=255)
                       ttCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGatata                                           >  1:2253598/1‑71 (MQ=255)
                        tCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGatat                                            <  1:580646/69‑1 (MQ=255)
                         cATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGatatat                                          <  1:5345646/70‑1 (MQ=255)
                          aTCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAGttc                                                       >  1:191617/1‑56 (MQ=255)
                               gcGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAGTTCTTGTGGAATGTACTGGCCTg                                   <  1:1535543/70‑1 (MQ=255)
                                cGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGata                                             >  1:278606/1‑60 (MQ=255)
                                cGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGata                                             >  1:1666905/1‑60 (MQ=255)
                                cGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGata                                             >  1:604235/1‑60 (MQ=255)
                                 ggTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAGTTCTTGTGGAATGTACTGGCCTg                                   <  1:3973303/69‑1 (MQ=255)
                                  gTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGatata                                           <  1:1932995/60‑1 (MQ=255)
                                   ttAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAGTTCTTGTGGAATGTACTGGCCTgggt                                >  1:3086546/1‑68 (MQ=255)
                                   ttAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGc                                      >  1:4762380/1‑64 (MQ=255)
                                   ttAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGc                                      >  1:994112/1‑64 (MQ=255)
                                   ttAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGAt                                >  1:1242021/1‑70 (MQ=255)
                                    tAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAGTTCttgt                                                   >  1:3407854/1‑48 (MQ=12)
                                    tAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAGTTCttgt                                                   >  1:4421043/1‑48 (MQ=12)
                                    tAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAGTTCTTGTGGAATGTACTGGCCTGGGttg                              >  1:515249/1‑70 (MQ=255)
                                    tAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAGTTCTTGTGGAATGTACTGGCCTGGGttg                              >  1:4670912/1‑70 (MQ=255)
                                    tAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTg                                                               >  1:2250094/1‑38 (MQ=255)
                                    tAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGatata                                           >  1:4132302/1‑58 (MQ=255)
                                    tAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGatata                                           >  1:3206924/1‑58 (MQ=255)
                                    tAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGatata                                           >  1:3200222/1‑58 (MQ=255)
                                    tAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGatata                                           >  1:4125810/1‑58 (MQ=255)
                                    tAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTa                              >  1:4273965/1‑71 (MQ=255)
                                     aaGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAGTTCTTGTGGAATGTACTGGCCTGGGttgt                             >  1:836348/1‑69 (MQ=255)
                                     aaGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGct                                                        >  1:5376067/1‑44 (MQ=255)
                                     aaGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTAt                             >  1:3408586/1‑71 (MQ=255)
                                           aaCGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTc                                                    >  1:4955736/1‑42 (MQ=255)
                                           aaCGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTc                                                    >  1:835567/1‑42 (MQ=255)
                                           aaCGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCg                                                  >  1:2314612/1‑44 (MQ=255)
                                           aaCGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTc                         >  1:4136100/1‑69 (MQ=255)
                                              gcgcACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGtt                    >  1:1228562/1‑71 (MQ=255)
                                               ttcACCGCTTCGCCTTCACCGGCCTGGCGCAGTTCTTGTGGAATGTACTGGCCTGGGTTGTGTTCCAGttt                   >  1:3514730/3‑71 (MQ=255)
                                                tcACCGCTTCGCCTTCACCGGCCTGGCGCAGTTCTTGTGGAATGTACTGGCCTGGGTTGTGTTCCAGttt                   <  1:3939654/69‑1 (MQ=255)
                                                tcACCGCTTCGCCTTCACCGGCCTGGCGCAGTTCTTGTGGAATGTACTGGCCTGGGTTGTGTTCCAGttt                   <  1:2587755/69‑1 (MQ=255)
                                                gcACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGtttt                  <  1:1686862/71‑1 (MQ=255)
                                                 cACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGtttt                  <  1:2858984/70‑1 (MQ=255)
                                                   ccGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATAttt                                        <  1:3619840/46‑1 (MQ=255)
                                                    cGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGa              >  1:2906151/1‑71 (MQ=255)
                                                    cGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGa              >  1:788805/1‑71 (MQ=255)
                                                    cGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGa              >  1:189977/1‑71 (MQ=255)
                                                    cGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGa              >  1:5163860/1‑71 (MQ=255)
                                                     gCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGAt             >  1:5046768/1‑71 (MQ=255)
                                                     gCTTCGCCTTCACCGGCCTGGCGCAGTTCTTGTGGAATGTACTGGCCTGGGTTGTGTTCCAGTTTTTCGAt             <  1:3122600/71‑1 (MQ=255)
                                                      cTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATc            <  1:4133638/71‑1 (MQ=255)
                                                      cTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATc            <  1:3000213/71‑1 (MQ=255)
                                                      cTTCGCCTTCACCGGCCTGGCGCAGTTCTTGTGGAATGTACTGGCCTGGGTTGTGTTCCAGTTTTTCGATc            <  1:4118388/71‑1 (MQ=255)
                                                         cGCCTTCACCGGCCTGGCGCAGTTCTTGTGGAATGTACTGGCCTGGGTTGTGTTCCAGTTTTTCGATCCa          <  1:290012/70‑1 (MQ=255)
                                                         cGCCTTCACCGGCCTGGCGCAGTTCTTGTGGAATGTACTGGCCTGGGTTGTGTTCCAGTTTTTCGATCCa          <  1:1328439/70‑1 (MQ=255)
                                                          gCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAg         <  1:5063043/70‑1 (MQ=255)
                                                          gCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAg         <  1:2727331/70‑1 (MQ=255)
                                                          gCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAg         <  1:3180425/70‑1 (MQ=255)
                                                          gCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAg         <  1:2193112/70‑1 (MQ=255)
                                                           ccTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGAt       <  1:2532187/71‑1 (MQ=255)
                                                             ttCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGa                                 >  1:5271891/1‑43 (MQ=255)
                                                             ttCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGAt                                <  1:1672559/44‑1 (MQ=255)
                                                             ttCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTa                              >  1:3055530/1‑46 (MQ=255)
                                                             ttCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTAGATTATGTTCCAGTTTTTCGATc            <  1:796523/64‑1 (MQ=255)
                                                              tctcCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATccc    >  1:376745/1‑71 (MQ=255)
                                                               ctcCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATcccc   >  1:2551854/1‑71 (MQ=255)
                                                                  ccGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCt  <  1:323718/69‑1 (MQ=255)
                                                                   |                                                                   
GCGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCT  >  minE/1014943‑1015077

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