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 608,706 G→A 26.3% D516D (GAC→GAT)  pflB ← pyruvate formate lyase I

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE608,7060GA26.3% 196.9 / 72.0 118D516D (GAC→GAT) pflBpyruvate formate lyase I
Reads supporting (aligned to +/- strand):  ref base G (54/33);  new base A (13/18);  total (67/51)
Fisher's exact test for biased strand distribution p-value = 6.00e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 122 total aligned reads displayed.

TTGCAGACAGGGAGTCAGCAGCAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAG  >  minE/608636‑608776
                                                                       |                                                                      
ttGCAGACAGGGAGTCAGCAGCAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACgg                                                                        <  1:709857/71‑1 (MQ=255)
 tGCAGACAGGGAGTCAGCAGCAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGt                                                                       >  1:3881570/1‑71 (MQ=255)
  gCAGACAGGGAGTCAGCAGCAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTc                                                                      >  1:4431275/1‑71 (MQ=255)
  gCAGACAGGGAGTCAGCAGCAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTc                                                                      >  1:5365467/1‑71 (MQ=255)
   cAGACAGGGAGTCAGCAGCAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTc                                                                      <  1:70206/70‑1 (MQ=255)
   cAGACAGGGAGTCAGCAGCAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCg                                                                     >  1:3893114/1‑71 (MQ=255)
     gACAGGGAGTCAGCAGCAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTg                                                                   <  1:2664318/71‑1 (MQ=255)
      aCAGGGAGTCAGCAGCAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTg                                                                   >  1:4380746/1‑70 (MQ=255)
      aCAGGGAGTCAGCAGCAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGc                                                                  <  1:259841/71‑1 (MQ=255)
       cAGGGAGTCAGCAGCAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGc                                                                  <  1:5063168/70‑1 (MQ=255)
       cAGGGAGTCAGCAGCAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCa                                                                 <  1:2870297/71‑1 (MQ=255)
        aGGGAGTCAGCAGCAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAg                                                                >  1:4929491/1‑71 (MQ=255)
          ggAGTCAGCAGCAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCa                                                                 >  1:767944/1‑68 (MQ=255)
              tCAGCAGCAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCAt                                                          <  1:5488704/71‑1 (MQ=255)
                agcagcAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAg                                                                >  1:4966893/1‑63 (MQ=255)
                agcagcAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCAt                                                          >  1:2339797/1‑69 (MQ=255)
                agcagcAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCAt                                                          >  1:3859894/1‑69 (MQ=255)
                agcagcAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCa                                                        <  1:5218487/71‑1 (MQ=255)
                       aCGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCagaga                                                    >  1:5597367/1‑68 (MQ=255)
                       aCGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGc                                                 >  1:225641/1‑71 (MQ=255)
                        ccgACAGGCCCGCGATGCCGCATGCCATAGTGC‑GATAGACATCACGATCGTGCAGCGCCATCAGCGAAGCt                                                >  1:2536424/3‑71 (MQ=255)
                           aCAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCg                                             >  1:190803/1‑71 (MQ=255)
                                 cAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCtt                                               >  1:4797998/1‑63 (MQ=255)
                                 cAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCtt                                               >  1:449662/1‑63 (MQ=255)
                                 cAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCtt                                               >  1:4804471/1‑63 (MQ=255)
                                 cAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCtt                                               >  1:789345/1‑63 (MQ=255)
                                 cAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTg                                       <  1:4899071/71‑1 (MQ=255)
                                 cAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGGCGTGCAGCGCCAt                                                          <  1:4551539/52‑1 (MQ=255)
                                   gCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCAt                                                          <  1:4739138/50‑1 (MQ=255)
                                   gCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCAt                                                          <  1:1076884/50‑1 (MQ=255)
                                   gCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCAt                                                          <  1:5505039/50‑1 (MQ=255)
                                   gCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTa                                     >  1:1757715/1‑71 (MQ=255)
                                    cGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCAt                                                          <  1:3946373/49‑1 (MQ=255)
                                     gATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTg                                                                   >  1:5614179/1‑39 (MQ=255)
                                     gATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCaga                                                      >  1:2844041/1‑52 (MQ=255)
                                     gATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCa                                                        >  1:761863/1‑50 (MQ=255)
                                     gATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTAc                                    >  1:4218048/1‑70 (MQ=255)
                                     gATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACt                                   >  1:4981778/1‑71 (MQ=255)
                                       tACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAgc                                                               >  1:350219/1‑41 (MQ=255)
                                         ccACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCagag                                                     >  1:1411553/1‑49 (MQ=255)
                                         ccACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCagag                                                     >  1:2049538/1‑49 (MQ=255)
                                         ccACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTg                                       <  1:4109552/63‑1 (MQ=255)
                                         ccACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGt                                <  1:1880320/70‑1 (MQ=255)
                                         ccACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGt                                <  1:4063157/70‑1 (MQ=255)
                                          cacaCGCCATCGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCaga                                                      >  1:4626461/1‑47 (MQ=255)
                                           acacGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCagag                                                     >  1:5594075/1‑47 (MQ=255)
                                           acacGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCagag                                                     >  1:2945116/1‑47 (MQ=255)
                                            catgCCATAGTGC‑GATAGACATCACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTg                            <  1:3557553/68‑1 (MQ=255)
                                            catgCCATAGTGC‑GATAGACATCACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTg                            <  1:4083297/68‑1 (MQ=255)
                                            cacGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTg                            >  1:3314966/1‑71 (MQ=255)
                                             acGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGc                           <  1:3358513/71‑1 (MQ=255)
                                              tgCCATAGTGC‑GATAGACATCACGATCGTGCAGCGCCATc                                                         <  1:965006/39‑1 (MQ=9)
                                              tgCCATAGTGC‑GATAGACATCACGATCGTGCAGCGCCATc                                                         <  1:1138975/39‑1 (MQ=9)
                                              tgCCATAGTGC‑GATAGACATCACGATCGTGCAGCGCCATc                                                         <  1:126045/39‑1 (MQ=9)
                                              tgCCATAGTGC‑GATAGACATCACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCa                          >  1:3838314/2‑71 (MQ=255)
                                              tgCCATAGTGC‑GATAGACATCACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCa                          >  1:568748/2‑71 (MQ=255)
                                                ccATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATg                        <  1:4580196/71‑1 (MQ=255)
                                                 cATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGt                       <  1:4603465/71‑1 (MQ=255)
                                                  aTGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTg                            <  1:3682641/65‑1 (MQ=255)
                                                  aTGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTg                            <  1:5161873/65‑1 (MQ=255)
                                                     gTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCt                                                >  1:4085135/1‑42 (MQ=255)
                                                     gTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTc                                              >  1:4631848/1‑44 (MQ=255)
                                                     gTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTg                   <  1:1283842/71‑1 (MQ=255)
                                                      tGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCagaga                                                    >  1:3987840/1‑37 (MQ=255)
                                                         ggATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAg                     >  1:697820/1‑65 (MQ=255)
                                                           aTA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGgatga              >  1:1649975/1‑70 (MQ=255)
                                                            tA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCg                                             >  1:1718547/1‑38 (MQ=255)
                                                            tA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCg                                             >  1:3158117/1‑38 (MQ=255)
                                                            tA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGatgatg            >  1:2485028/1‑71 (MQ=255)
                                                             a‑aCGTCACGGTCGTGCAGCGCCATCAGAGAGTCTTc                                              >  1:1685677/1‑36 (MQ=255)
                                                             a‑aCGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGt           >  1:3993825/1‑71 (MQ=255)
                                                               acatCACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATAtt          <  1:4782496/68‑1 (MQ=255)
                                                               aCGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGtt          <  1:392572/71‑1 (MQ=255)
                                                                cGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGtt          >  1:3245952/1‑70 (MQ=255)
                                                                 atCACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGaatgata            >  1:1286047/2‑66 (MQ=255)
                                                                 atCACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGaatgata            >  1:3689863/2‑66 (MQ=255)
                                                                 atCACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATAtt          <  1:1976578/68‑1 (MQ=255)
                                                                 atCACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTca        <  1:3606150/70‑1 (MQ=255)
                                                                 atCACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTca        <  1:5568922/70‑1 (MQ=255)
                                                                 atCACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTca        <  1:2054779/70‑1 (MQ=255)
                                                                  tCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGtt          <  1:5486016/68‑1 (MQ=255)
                                                                  tCACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTa                      <  1:4340230/56‑1 (MQ=255)
                                                                  tCACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTa                      <  1:783134/56‑1 (MQ=255)
                                                                  tCACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATAtt          <  1:2958806/68‑1 (MQ=255)
                                                                   cACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGga                 >  1:5182136/1‑60 (MQ=255)
                                                                   cACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTcagt      >  1:3647712/1‑71 (MQ=255)
                                                                   cACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGaatgat             >  1:5504193/1‑64 (MQ=255)
                                                                   cACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTc         <  1:2432898/68‑1 (MQ=255)
                                                                   cACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTc         <  1:378611/68‑1 (MQ=255)
                                                                    aCGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTcagtg     >  1:2192726/1‑71 (MQ=255)
                                                                    aCGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTcagtg     <  1:2905936/71‑1 (MQ=255)
                                                                    aCGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTcagtg     >  1:3045651/1‑71 (MQ=255)
                                                                    aCGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCg                              >  1:2028101/1‑46 (MQ=255)
                                                                    aCGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTcagcg     >  1:3443817/1‑69 (MQ=255)
                                                                    aCGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTcagcg     >  1:956321/1‑69 (MQ=255)
                                                                    aCGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTcagcg     >  1:323897/1‑69 (MQ=255)
                                                                    aCGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTcagcg     >  1:2214593/1‑69 (MQ=255)
                                                                       gTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTcagtgcag  >  1:2970207/1‑71 (MQ=255)
                                                                       gTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTcagtgcag  >  1:3317045/1‑71 (MQ=255)
                                                                       gTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTcagtgcag  >  1:3504231/1‑71 (MQ=255)
                                                                       |                                                                      
TTGCAGACAGGGAGTCAGCAGCAACGGACAGACCAGCGATACCACACGCCATGGTGCGGATA‑ACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAG  >  minE/608636‑608776

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