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 1,014,991 G→T 32.9% R360S (CGC→AGC) ‡ fumA ← aerobic Class I fumarate hydratase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,014,9910GT32.9% 137.6 / 58.7 85R360S (CGC→AGC) ‡fumAaerobic Class I fumarate hydratase
Reads supporting (aligned to +/- strand):  ref base G (33/24);  new base T (14/14);  total (47/38)
Fisher's exact test for biased strand distribution p-value = 6.43e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AAGCGTGTAGAAACGGGATACTGCGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTT  >  minE/1014921‑1015061
                                                                      |                                                                      
aaGCGTGTAGAAACGGGATACTGCGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAAcgcg                                                                        >  1:5622352/1‑71 (MQ=255)
 aGCGTGTAGAAACGGGATACTGCGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACgcgc                                                                       <  1:700668/71‑1 (MQ=255)
     tgtAGAAACGGGATACTGCGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCg                                                                   <  1:5153970/71‑1 (MQ=255)
       tAGAAACGGGATACTGCGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCt                                                                 <  1:734071/71‑1 (MQ=255)
       tAGAAACGGGATACTGCGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCt                                                                 <  1:5422825/71‑1 (MQ=255)
         gAAACGGGATACTGCGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTc                                                               <  1:3522649/71‑1 (MQ=255)
         gAAACGGGATACTGCGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTc                                                               <  1:1180063/71‑1 (MQ=255)
         gAAACGGGATACTGCGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTc                                                               <  1:4334335/71‑1 (MQ=255)
         gAAACGGGATACTGCGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTc                                                               <  1:5587656/71‑1 (MQ=255)
          aaaCGGGATACTGCGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCg                                                              <  1:1062587/71‑1 (MQ=255)
           aaCGGGATACTGCGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCg                                                              <  1:3743063/70‑1 (MQ=255)
           aaCGGGATACTGCGACAACTGTGCGA‑GATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGcc                                                            <  1:5172977/71‑1 (MQ=255)
            aCGGGATACTGTGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGcc                                                            <  1:1118155/71‑1 (MQ=255)
            aCGGGATACTGCGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGcc                                                            >  1:5463478/1‑71 (MQ=255)
                gATACTGCGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTtct                                                        >  1:3546580/1‑71 (MQ=255)
                    ttGCGAAAGCTGGGCGAGGATCTCTTTCATCGGGCGGTTAAGTTCAACTTTCACCGCTTCGCCTTCAccgg                                                    <  1:987450/70‑3 (MQ=255)
                    ttGCGAAAGCTGGGCGAGGATCTCTTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTtc                                                         <  1:325874/65‑1 (MQ=255)
                    cTGCGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGc                                                             >  1:1841169/1‑62 (MQ=255)
                      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)
                           aaCTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCAc                                                                     >  1:1600901/1‑47 (MQ=255)
                           aaCTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTgcg                                             <  1:2852920/71‑1 (MQ=255)
                            gcTGGGCGAGGATCTCTTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGgcgc                                            <  1:4029525/70‑1 (MQ=255)
                            gcTGGGCGAGGATCTCTTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGgcgc                                            <  1:3847078/70‑1 (MQ=255)
                             cTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGc                                                             >  1:3945951/1‑53 (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)
                                   gAGGATCTCTTTCATCGGGCGGTTAATGTCAACTTTCACCGCTTCGcc                                                            <  1:4268016/48‑1 (MQ=25)
                                   gAGGATCTCTTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGcc                                                            <  1:3374172/48‑1 (MQ=37)
                                   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                                      >  1:2940352/1‑65 (MQ=255)
                                        tctcTTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAGttct                                      >  1:2350452/1‑65 (MQ=255)
                                          tctTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTtc                                                         <  1:5614804/44‑1 (MQ=25)
                                          tctTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAg                                          >  1:5496678/1‑59 (MQ=255)
                                          tctTTCATCGGGCGGTTAAGGTCAACTTTCACCGCTTCGCCTTCACCGGCCTGGCGCAg                                          >  1:4678574/1‑59 (MQ=255)
                                          tctTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTc                                                               <  1:627218/38‑1 (MQ=255)
                                           ctTTCATCGGGCGGTTAAGGTCAACTTTCACCGCtt                                                                >  1:1172061/1‑36 (MQ=19)
                                            tttCATCGGACGGTTAAGGTCAACGCGCACCTCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCgg                                 <  1:2311441/66‑1 (MQ=255)
                                            tttCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCtt                                                          >  1:3682484/1‑41 (MQ=255)
                                            tttCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCtt                                                          >  1:3832311/1‑41 (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)
                                              tCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTtctc                                                       >  1:2481659/1‑42 (MQ=255)
                                              tCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTtctc                                                       >  1:3161498/1‑42 (MQ=255)
                                              tCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTtctc                                                       >  1:716215/1‑42 (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                             >  1:604235/1‑60 (MQ=255)
                                                      cGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGata                             >  1:1666905/1‑60 (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                           >  1:3206924/1‑58 (MQ=255)
                                                          tAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGatata                           >  1:4125810/1‑58 (MQ=255)
                                                          tAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGatata                           >  1:3200222/1‑58 (MQ=255)
                                                          tAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGatata                           >  1:4132302/1‑58 (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                                    >  1:835567/1‑42 (MQ=255)
                                                                 aaCGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTc                                    >  1:4955736/1‑42 (MQ=255)
                                                                 aaCGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCg                                  >  1:2314612/1‑44 (MQ=255)
                                                                 aaCGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTc         >  1:4136100/1‑69 (MQ=255)
                                                                    gcgcACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGtt    >  1:1228562/1‑71 (MQ=255)
                                                                      gcACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGtttt  <  1:1686862/71‑1 (MQ=255)
                                                                      |                                                                      
AAGCGTGTAGAAACGGGATACTGCGACAACTGTGCGAGGATCTCTTTCATCGGACGGTTAAGGTCAACGCGCACCGCTTCGCCTTCTCCCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTT  >  minE/1014921‑1015061

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A