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 F28 I3 R2 24 47.7 2431847 96.1% 2337004 60.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA minE 2,891,553 A→G K70E (AAA→GAA)  ytfQ → predicted sugar transporter subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,891,5530AG98.7% 295.3 / ‑4.2 79K70E (AAA→GAA) ytfQpredicted sugar transporter subunit
Reads supporting (aligned to +/- strand):  ref base A (0/1);  new base G (22/56);  total (22/57)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01

AGTGAAGCCGAAAAGCGCGGAATCACGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTAAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGCTCCGGTGGTCGCGACAGG  >  minE/2891484‑2891620
                                                                     |                                                                   
aGTGAAGCCGAAAAGCGCGGAATCACGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTa                                                                     >  1:2419427/1‑70 (MQ=255)
  tGAAGCCGAAAAGCGCGGAATCACGTTGAAAATTGCCGATGGTCATCAAAAGCAGGAAAACCAGATTGAAg                                                                  <  1:1137783/71‑1 (MQ=255)
  tGAAGCCGAAAAGCGCGGAATCACGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAg                                                                  <  1:2298690/71‑1 (MQ=255)
    aaGCCGAAAAGCGCGGAATCACGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCg                                                                <  1:586258/71‑1 (MQ=255)
    aaGCCGAAAAGCGCGGAATCACGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCg                                                                <  1:1582270/71‑1 (MQ=255)
     aGCCGAAAAGCGCGGAATCACGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCgg                                                               <  1:31038/71‑1 (MQ=255)
     aGCCGAAAAGCGCGGAATCACGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCgg                                                               <  1:162134/71‑1 (MQ=255)
          aaaaGCGCGGAATCACGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGt                                                          <  1:1906930/71‑1 (MQ=255)
           aaaGCGCGGAATCACGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGtt                                                         >  1:1239176/1‑71 (MQ=255)
            aaGCGCGGAATCACGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTc                                                        >  1:1464944/1‑71 (MQ=255)
               cgcgGAATCACGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCtt                                                     <  1:1718802/71‑1 (MQ=255)
                 cgGAATCACGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGc                                                                 <  1:1267474/57‑1 (MQ=255)
                 cgGAATCACGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGc                                                                 <  1:1380924/57‑1 (MQ=255)
                   gAATCACGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTAAAGCGGTACGTTCCTTCGtt                                                 <  1:2211594/71‑1 (MQ=255)
                      tCACGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGca                                              >  1:2115219/1‑71 (MQ=255)
                      tCACGATGAAAATTGGCGATGGTCAGCTAAAGCAGGAAAACCAGATTGAAg                                                                  >  1:441685/1‑51 (MQ=37)
                        aCGTTGAAAATTGCCGTTGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGcac                                             >  1:642834/1‑70 (MQ=255)
                        aCGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCtt                                                     >  1:1774442/1‑62 (MQ=255)
                        aCGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCtt                                                     >  1:513156/1‑62 (MQ=255)
                        aCGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGcac                                             <  1:924887/70‑1 (MQ=255)
                        aCGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGcac                                             <  1:765364/70‑1 (MQ=255)
                         cGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGcac                                             >  1:565890/1‑69 (MQ=255)
                         cGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGcac                                             >  1:1797447/1‑69 (MQ=255)
                         cGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACaa                                           <  1:1860802/71‑1 (MQ=255)
                             gAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAgggg                                       >  1:1015414/1‑71 (MQ=255)
                             gAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAgggg                                       >  1:931112/1‑71 (MQ=255)
                                aaTTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTa                                                             >  1:333712/1‑46 (MQ=255)
                                aaTTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTa                                                             >  1:497766/1‑46 (MQ=255)
                                 aTTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAg                                                                  <  1:2161100/40‑1 (MQ=255)
                                 aTTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAg                                                                  <  1:2095407/40‑1 (MQ=255)
                                 aTTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGa                                   <  1:1612174/71‑1 (MQ=255)
                                 aTTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGa                                   <  1:2215208/71‑1 (MQ=255)
                                 aTTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGa                                   <  1:1104832/71‑1 (MQ=255)
                                 aTTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGa                                   <  1:423406/71‑1 (MQ=255)
                                  ttGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGAt                                  <  1:262598/71‑1 (MQ=255)
                                    gCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGcac                                             <  1:709171/58‑1 (MQ=255)
                                    gCCGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGcac                                             <  1:1690764/58‑1 (MQ=255)
                                     ccGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAggg                                        <  1:1546153/62‑1 (MQ=255)
                                     ccGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAggg                                        <  1:440802/62‑1 (MQ=255)
                                      cGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTAc                                                            <  1:1986793/41‑1 (MQ=255)
                                      cGATGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAggg                                        <  1:905849/61‑1 (MQ=255)
                                        aTGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGt                                                              <  1:1963914/37‑1 (MQ=255)
                                        aTGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTAc                                                            >  1:604560/1‑39 (MQ=255)
                                        aTGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATc                            >  1:1878437/1‑71 (MQ=255)
                                         tGGTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCt                                                      >  1:290190/1‑44 (MQ=255)
                                           gTCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCttt                         <  1:1800322/71‑1 (MQ=255)
                                            tCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCtt                                                     <  1:2429735/42‑1 (MQ=255)
                                            tCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCtt                                                     <  1:1123749/42‑1 (MQ=255)
                                            tCAGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCtt                                                     <  1:740767/42‑1 (MQ=255)
                                              aGCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATc                      >  1:201218/1‑71 (MQ=255)
                                               gCAAAAGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAggg                                        <  1:1029127/52‑1 (MQ=255)
                                                cAAAAGCAGGAAAACTAGATTGAAGCGGTACGTTCCTTCg                                                   <  1:878433/40‑1 (MQ=37)
                                                 aaaaGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGc                    <  1:392003/70‑1 (MQ=255)
                                                 aaaaGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGc                    <  1:1810811/70‑1 (MQ=255)
                                                 aaaaGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGCt                   <  1:925480/71‑1 (MQ=255)
                                                   aaGCTGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGCTcc                 <  1:2301602/71‑1 (MQ=255)
                                                   aaGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAGGGGGTGGATGCGATCTTTATCGCTcc                 <  1:2010806/71‑1 (MQ=255)
                                                   aaGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGCTcc                 <  1:1405033/71‑1 (MQ=255)
                                                   aaGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGCTcc                 <  1:768077/71‑1 (MQ=255)
                                                   aaGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGCTcc                 <  1:1782451/71‑1 (MQ=255)
                                                   aaGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGCTcc                 <  1:1203835/71‑1 (MQ=255)
                                                    aGCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGCt                   <  1:1564034/68‑1 (MQ=255)
                                                     gCAGGAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCg                               <  1:1577075/55‑1 (MQ=255)
                                                        ggAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGCTCCggtgg            <  1:899541/71‑1 (MQ=255)
                                                         gAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGcac                                             <  1:149595/37‑1 (MQ=255)
                                                         gAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACaa                                           <  1:909881/39‑1 (MQ=255)
                                                         gAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACaa                                           <  1:107889/39‑1 (MQ=255)
                                                         gAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCt                           <  1:524267/55‑1 (MQ=255)
                                                         gAAAACCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGCTCCggtggt           >  1:6121/1‑71 (MQ=255)
                                                           aaaCCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCg                               <  1:840776/49‑1 (MQ=255)
                                                           aaaCCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTAt                       <  1:641143/57‑1 (MQ=255)
                                                           aaaCCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTAt                       <  1:1801813/57‑1 (MQ=255)
                                                           aaaCCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGCTcc                 >  1:94625/1‑63 (MQ=255)
                                                           aaaCCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGCTcc                 >  1:1596824/1‑63 (MQ=255)
                                                           aaaCCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGCTcc                 >  1:1645457/1‑63 (MQ=255)
                                                            aaCCAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGCTCCGGTGGTcgc        <  1:887585/71‑1 (MQ=255)
                                                               cAGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGCTCCGGTGGTCGCGa      >  1:2362012/1‑70 (MQ=255)
                                                                aGATTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGCTCCGGTGGTCGCGa      <  1:224629/69‑1 (MQ=255)
                                                                  aTTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGCTCCGGTGGTc          <  1:862751/63‑1 (MQ=255)
                                                                  aTTGAAGCGGTACGTTCCTTCGTTGCACAAGGGGTAGATGCGATCTTTATCGCTCCGGTGGTCGCGACAgg  <  1:500987/71‑1 (MQ=255)
                                                                     |                                                                   
AGTGAAGCCGAAAAGCGCGGAATCACGTTGAAAATTGCCGATGGTCAGCAAAAGCAGGAAAACCAGATTAAAGCGGTACGTTCCTTCGTTGCACAAGGGGTGGATGCGATCTTTATCGCTCCGGTGGTCGCGACAGG  >  minE/2891484‑2891620

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