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 2,094,006 T→C 23.4% V282V (GTA→GTG)  tdcG ← L‑serine dehydratase 3

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,094,0060TC23.4% 132.9 / 40.1 77V282V (GTA→GTG) tdcGL‑serine dehydratase 3
Reads supporting (aligned to +/- strand):  ref base T (36/23);  new base C (14/4);  total (50/27)
Fisher's exact test for biased strand distribution p-value = 2.63e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.38e-01

GACGACGGAACTTATCGTAATAAGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGCCAGCGCGTACATGTTGATCCAGTCGATGACA  >  minE/2093936‑2094075
                                                                      |                                                                     
gacgacGGAACTTATCGTAATAAGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGtt                                                                       <  1:3766914/71‑1 (MQ=255)
 acgacgGAACTTATCGTAATAAGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTa                                                                      <  1:4912529/71‑1 (MQ=255)
   gacgGAACTTATCGTAATAAGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTAcc                                                                    <  1:330598/71‑1 (MQ=255)
   gacgGAACTTATCGTAATAAGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTAcc                                                                    <  1:5573537/71‑1 (MQ=255)
      taaaCTTGTCGTAGTACGCCAGAACTGCCGGGATAATCCCGCACGCACCGTTAGTCGGCGCAGTCAc                                                                     >  1:5127424/3‑67 (MQ=255)
      ggAACTTATCGTAATAAGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCAcg                                                                 >  1:164002/1‑71 (MQ=255)
         aCTTATCGTAATAAGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACgcgc                                                              >  1:3708721/1‑71 (MQ=255)
         aCTTATCGTAATAAGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACgcgc                                                              >  1:4843/1‑71 (MQ=255)
           ttgtCGTAGTACGCCAGAACTGCCGGGATAATCCCGCACGCACCGTTAGTCGGCGCAGTCAc                                                                     <  1:3702030/59‑1 (MQ=255)
           ttgtCGTAGTACGCCAGAACTGCCGGGATAATCCCGCACGCACCGTTAGTCGGCGCAGTCACCACGcgacc                                                            >  1:938376/4‑71 (MQ=255)
           ttgtCGTAGTACGCCAGAACTGCCGGGATAATCCCGCACGCACCGTTAGTCGGCGCAGTCACCACGcgacc                                                            >  1:5468454/4‑71 (MQ=255)
           ttgtCGTAGTACGCCAGAACTGCCGGGATAATCCCGCACGCACCGTTAGTCGGCGCAGTCACCACGcgacc                                                            >  1:2066948/4‑71 (MQ=255)
            tATCGTAATAAGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCAcgc                                                                >  1:217407/1‑66 (MQ=255)
            tATCGTAATAAGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCAcgc                                                                >  1:3890246/1‑66 (MQ=255)
            tATCGTAATAAGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCAcgc                                                                >  1:5502257/1‑66 (MQ=255)
             gtCGTAGTACGCCAGAACTGCCGGGATAATCCCGCACGCACCGTTAGTCGGCGCAGTCACCa                                                                   >  1:3176502/2‑62 (MQ=255)
             gtCGTAGTACGCCAGAACTGCCGGGATAATCCCGCACGCACCGTTAGTCGGCGCAGTCACCa                                                                   >  1:3169996/2‑62 (MQ=255)
             aTCGTAATAAGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTa                                                                      >  1:4688323/1‑59 (MQ=255)
             aTCGTAATAAGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGcgcccgc                                                          >  1:3695590/1‑71 (MQ=255)
             aTCGTAATAAGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGcgcccgc                                                          >  1:2676583/1‑71 (MQ=255)
             aTCGTAATAAGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGcgcccgc                                                          >  1:4637198/1‑71 (MQ=255)
             aTCGTAATAAGACAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTa                                                                      >  1:168245/1‑59 (MQ=255)
              tCGTAGTACGCCAGAACTGCCGGGATAATCCCGCACGCACCGTTAGTCGGCGCAGTcaccac                                                                  >  1:3411282/1‑62 (MQ=255)
              tCGTAGTACGCCAGAACTGCCGGGATAATCCCGCACGCACCGTTAGTCGGCGCAGTcaccac                                                                  >  1:1527158/1‑62 (MQ=255)
                gtagtaCGCCAGAACTGCCGGGATAATCCCGCACGCACCGTTAGTCGGCGCAGTCACCACGCGACCGCCAg                                                       >  1:806680/1‑71 (MQ=255)
                   ataaGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTg                                                    >  1:4459363/1‑71 (MQ=255)
                     aaGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCa                                                                   >  1:3661131/1‑54 (MQ=255)
                      aGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCg                                                  <  1:659736/70‑1 (MQ=255)
                      aGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGt                                                 >  1:2956915/1‑71 (MQ=255)
                       gCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCg                                                  <  1:3037432/69‑1 (MQ=255)
                       gCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGtt                                                <  1:5166382/71‑1 (MQ=255)
                       gCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGtt                                                <  1:465832/71‑1 (MQ=255)
                        ccAGAACTGCCGGGATAATCCCGCACGCACCGTTAGTCGGCGCAGTCACCACGCGACCGCCAGCAGCGttc                                               >  1:2181308/1‑70 (MQ=255)
                        ccAGAACTGCCGGGATAATCCCGCACGCACCGTTAGTCGGCGCAGTCACCACGCGACCGCCAGCAGCGttc                                               >  1:2620699/1‑70 (MQ=255)
                        ccAGAACTGCCGGGATAATCCCGCACGCACCGTTAGTCGGCGCAGTCACCACGCGACCGCCAGCAGCGttc                                               <  1:2552742/71‑2 (MQ=255)
                         cAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGtttt                                              <  1:182662/71‑1 (MQ=255)
                         cAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGtttt                                              <  1:2560447/71‑1 (MQ=255)
                         cAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGtttt                                              >  1:1294979/1‑71 (MQ=255)
                          aGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTttc                                             >  1:3581412/1‑71 (MQ=255)
                          aGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTttc                                             >  1:58555/1‑71 (MQ=255)
                            tACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTttctt                                           <  1:3112079/71‑1 (MQ=255)
                            tACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTttctt                                           <  1:4390054/71‑1 (MQ=255)
                              cTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGtt                                                                       >  1:3661615/1‑41 (MQ=255)
                              cTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGtt                                                                       >  1:3664791/1‑41 (MQ=255)
                              cTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGtt                                                                       >  1:3668176/1‑41 (MQ=255)
                              cTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTttctt                                           >  1:1208784/1‑69 (MQ=255)
                               tGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTa                                                                      <  1:3043430/41‑1 (MQ=255)
                               tGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTa                                                                      <  1:556242/41‑1 (MQ=255)
                                gCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGtt                                                <  1:1173057/62‑1 (MQ=255)
                                gCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCAc                                        >  1:3455443/1‑70 (MQ=255)
                                 ccGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTa                                                                      <  1:2388891/39‑1 (MQ=255)
                                  cGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTaa                                     <  1:384785/71‑1 (MQ=255)
                                   ggAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAAc                                    >  1:3191954/1‑71 (MQ=255)
                                    ggataatCCCGCACGCACCGTTAGTCGGCGCAGTCACCACGCGACCGCCAGCAGCGtt                                                <  1:5387372/56‑1 (MQ=255)
                                    gAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTaa                                     >  1:4677484/1‑69 (MQ=255)
                                      ataatGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGc                                 >  1:4308065/1‑71 (MQ=255)
                                      ataatGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGc                                 >  1:5546509/1‑71 (MQ=255)
                                        aatGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTttct                                            <  1:4361282/58‑1 (MQ=255)
                                        aatGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTttct                                            <  1:2004588/58‑1 (MQ=255)
                                        aatGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTttct                                            <  1:604785/58‑1 (MQ=255)
                                          tcccGCACGCACCGTTAGTCGGCGCAGTCACCACGCGACCGCCAGCAGCGTTCTCTTCGTTCACTGCCAgt                             >  1:1552554/3‑70 (MQ=255)
                                             cgcacgcaCCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGCCcgcgcg                          >  1:1346859/1‑71 (MQ=255)
                                              gcacgcacCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGCCAGcgcg                          >  1:3312505/1‑70 (MQ=255)
                                              gcacgcacCGTTAGTCGGCGCAGTCACCACGCGACCGCCAGCAGCGTTCTCTTCGTTCACTGCCAgtgca                          >  1:2334490/1‑69 (MQ=255)
                                              gcacgcacCGTTAGTCGGCGCAGTCACCACGCGACCGCCAGCAGCGTTCTCTTCGTTCACTGCCAgtgca                          <  1:1044766/70‑2 (MQ=255)
                                               cacgcacCGTTAGTCGGCGCAGTCACCACGCGACCGCCAGCAGCGTTCTCTTCGTTCACTGCCAgtgcaaa                        >  1:620203/1‑68 (MQ=255)
                                                 cgcacCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGCCAGCGCGTACa                      >  1:5409053/1‑71 (MQ=255)
                                                 cgcacCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGCCAGCGCGTACa                      >  1:2567839/1‑71 (MQ=255)
                                                      cGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGCCAGCGCGTACATGTTg                 <  1:2775499/71‑1 (MQ=255)
                                                      cGTTAGTCGGCGCAGTCACCACGCGACCGCCAGCAGCGTTCTCTTCGTTCACTGCCAGTGCAAACATGt                   >  1:5522383/1‑69 (MQ=255)
                                                       gTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGCCAgc                             >  1:2495112/1‑58 (MQ=255)
                                                       gTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGCCAGcgcg                          <  1:5421752/61‑1 (MQ=255)
                                                       gTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGCCAGCGCGTACATGTTGa                >  1:3041413/1‑71 (MQ=255)
                                                       gTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGCCAGCGCGTACATGTTGa                >  1:925203/1‑71 (MQ=255)
                                                        ttAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGCCAGCGCGTACATGTTGAt               >  1:5399221/1‑71 (MQ=255)
                                                        ttAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGCCAGCGCGTACATGTTGAt               >  1:466892/1‑71 (MQ=255)
                                                         tAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGCCAGCGCGTACATGTTGa                <  1:3601001/69‑1 (MQ=255)
                                                          aGTCGGCGCAGTCACCACGCGACCGCCAGCAGCGTTCTCTTCGTTCACTGCCAGTGCAAACATGTTGATc              >  1:3908176/1‑70 (MQ=255)
                                                            tCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTttctt                                           <  1:5136975/39‑1 (MQ=255)
                                                              ggTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGCCAGCGCGTACATGTTGATCCAGTc         >  1:2580445/1‑71 (MQ=255)
                                                              ggTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGCCAGCGCGTACATGTTGATCCAGTc         >  1:749459/1‑71 (MQ=255)
                                                                  ccGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGCCAGCGCGTACATGTTGATCCAGTCGAt      >  1:2698284/1‑70 (MQ=255)
                                                                    gTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGCCAGCGCGTACATGTTGATCCAGTCGa       >  1:40654/1‑67 (MQ=255)
                                                                     ttACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGCCAGCGCGTACATGTTGATCCAGTCGATGACa  <  1:977343/71‑1 (MQ=255)
                                                                      |                                                                     
GACGACGGAACTTATCGTAATAAGCCAGTACTGCCGGAATAATGCCGCACGCACCGTTAGTCGGTGCCGTTACCACGCGCCCGCCAGCTGCGTTTTCTTCACTAACCGCCAGCGCGTACATGTTGATCCAGTCGATGACA  >  minE/2093936‑2094075

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