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 1,015,499 T→G 27.3% A190A (GCA→GCC)  fumA ← aerobic Class I fumarate hydratase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,015,4990TG27.3% 142.4 / 90.1 119A190A (GCA→GCC) fumAaerobic Class I fumarate hydratase
Reads supporting (aligned to +/- strand):  ref base T (36/50);  new base G (15/17);  total (52/67)
Fisher's exact test for biased strand distribution p-value = 6.79e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 132 total aligned reads displayed.

GTAATTTTTCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCAACGGCATAAAGATCGAT  >  minE/1015436‑1015567
                                                               |                                                                    
gTAATTTTTCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAac                                                               <  1:1417246/71‑1 (MQ=255)
  aaTTTTTCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAacca                                                             >  1:3940664/1‑71 (MQ=255)
   aTTTTTCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAaccac                                                            <  1:3980521/71‑1 (MQ=255)
   aTTTTTCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAaccac                                                            <  1:4047212/71‑1 (MQ=255)
      tttCAGTTTGCCGGGAGTCAGCAGGGCTTTGGTTTCCTGGTAGAGATACGTTTTGTTGGCAGAgccgccgc                                                         >  1:5472185/1‑69 (MQ=255)
        tCAGTTTGCCGGGAGTCAGCAGGGCTTTGGTTTCCTGGTAGAGATACGTTTTGTTGGca                                                                   >  1:2195172/1‑58 (MQ=255)
        tCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGc                                                                    <  1:4831137/58‑1 (MQ=255)
          aGTTTGCCGGGAGTCAGCAGGGCTTTGGTTTCCTGGTAGAGATACGTTTTGTTGGCAGAGCCGCCGCCtt                                                      <  1:1191864/70‑1 (MQ=255)
          aGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCg                                                                  >  1:3458132/1‑58 (MQ=255)
          aGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCg                                                                  >  1:4799489/1‑58 (MQ=255)
           gTTTCCCCAGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTg                                                    >  1:1338241/1‑71 (MQ=255)
              tCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGc                                                  <  1:3608082/70‑1 (MQ=255)
              tCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGc                                                  <  1:3885495/70‑1 (MQ=255)
              tCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGc                                                  >  1:1573830/1‑70 (MQ=255)
                cccGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGa                                                <  1:862705/70‑1 (MQ=255)
                cccGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGa                                                <  1:1886545/70‑1 (MQ=255)
                   ggCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACa                                            <  1:668128/71‑1 (MQ=255)
                    gCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCg                                                                  >  1:3268327/1‑48 (MQ=255)
                    gCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCg                                                                  >  1:1130160/1‑48 (MQ=255)
                       tCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCg                                                                  <  1:5152596/45‑1 (MQ=255)
                         aGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTgg                                                   >  1:247607/1‑58 (MQ=255)
                         aGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGaa                                      >  1:5405961/1‑71 (MQ=255)
                          gTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGttt                                                                      <  1:2255237/38‑1 (MQ=255)
                          gTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAAt                                     <  1:3288018/71‑1 (MQ=255)
                           tAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAaccaccac                                                         <  1:1364505/50‑1 (MQ=255)
                           tAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAaccaccac                                                         <  1:629610/50‑1 (MQ=255)
                           tAACGCTTTGGGTTCCTGATAGAGATACGTCTTGTTTGCCGAaccaccac                                                         <  1:1187300/50‑1 (MQ=255)
                            aaCGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGaa                                                                >  1:5173167/1‑42 (MQ=255)
                            aaCGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAaccaccac                                                         <  1:1484955/49‑1 (MQ=255)
                             gggCTTTGGTTTCCTGGTAGAGATACGTTTTGTTGGCAGAGCCGCCGCCTTTCGCAACGCAAAGGAATTTg                                  >  1:4443382/3‑71 (MQ=255)
                             gggCTTTGGTTTCCTGGTAGAGATACGTTTTGTTGGCAGAGCCGCCGCCTTTCGCAACGCAAAGGAATTTg                                  <  1:289407/69‑1 (MQ=255)
                             aCGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGa                                                >  1:4311400/1‑57 (MQ=255)
                             aCGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTg                                  >  1:5656091/1‑71 (MQ=255)
                             aCGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTg                                  <  1:2210864/71‑1 (MQ=255)
                             aCGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTg                                  >  1:2861294/1‑71 (MQ=255)
                               gCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTa                                <  1:1073069/71‑1 (MQ=255)
                                cTTTGGTTTCCTGGTAGAGATACGTTTTGTTGGCAGAGCCGCCGCCttt                                                     >  1:1305058/1‑49 (MQ=255)
                                cTTTGGTTTCCTGGTAGAGATACGTTTTGTTGGCAGAGCCGCCGCCTTTCGCAACGCAAAGGAATTTGTac                               >  1:279029/1‑70 (MQ=255)
                                cTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTAt                               <  1:2561958/71‑1 (MQ=255)
                                 tttGGTTTCCTGGTAGAGATACGTTTTGTTGGCAGAGCCGCCGCCTTTCGCAACGCAAAGGAATTTg                                  <  1:4939290/67‑1 (MQ=255)
                                  ttGGTTTCCTGGTAGAGATACGTTTTGTTGGCAGa                                                                 >  1:2332942/1‑35 (MQ=19)
                                   tGGTTTCCTGGTAGAGATACGTTTTGTTGGCAGAGCCGCCGCCTTTCGCAACGCAAAGGAATTTGTACtc                             <  1:4594302/70‑1 (MQ=255)
                                   tGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCtt                                                      <  1:5695635/45‑1 (MQ=255)
                                   tGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATtc                             <  1:1586922/70‑1 (MQ=255)
                                   tGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGAGATACAGAGGAATTTGTATtc                             <  1:1905209/70‑1 (MQ=255)
                                    ggTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATtcgt                           >  1:422688/1‑71 (MQ=255)
                                    ggTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATtcgt                           >  1:5297930/1‑71 (MQ=255)
                                    ggTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATtcgt                           >  1:3400818/1‑71 (MQ=255)
                                    ggTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATtcg                            >  1:1547230/1‑70 (MQ=255)
                                      tttCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGAt                                               <  1:4619618/49‑1 (MQ=255)
                                      tttCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGaa                                      >  1:5251844/1‑58 (MQ=255)
                                        tCCTGGTAGAGATACGTTTTGTTGGCAGAGCCGCCGCCTTTCGc                                                  <  1:3300920/44‑1 (MQ=9)
                                        tCCTGGTAGAGATACGTTTTGTTGGCAGAGCCGCCGCCTTTCGCAACGCAAAGGAATTTGTACTCATCGc                        >  1:2245741/1‑70 (MQ=255)
                                        tCCTGGTAGAGATACGTTTTGTTGGCAGAGCCGCCGCCTTTCGCAACGCAAAGGAATTTGTACTCATCGc                        <  1:3758264/70‑1 (MQ=255)
                                        tCCTGGTAGAGATACGTTTTGTTGGCAGAGCC‑CCGCCTTTCGCAACGCAAAGGaa                                      <  1:1819799/55‑1 (MQ=255)
                                        tCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGa                                                >  1:921680/1‑46 (MQ=255)
                                        tCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGa                                                >  1:5035740/1‑46 (MQ=255)
                                        tCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATtcgtc                          <  1:3839973/68‑1 (MQ=255)
                                        tCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGc                        <  1:4641737/70‑1 (MQ=255)
                                        tCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGc                        >  1:2995995/1‑70 (MQ=255)
                                        tCCTGATAGAGATACGTCTTGTTAGCCGAACCACCACCTTTGGCGa                                                >  1:638196/1‑46 (MQ=255)
                                         ccTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCa                      >  1:3948516/1‑71 (MQ=255)
                                          cTGGTAGAGATACGTTTTGTTGGCAGAGCCGCCGCCTTTCGCAACGCAAAGGAATTTGt                                 <  1:4192742/59‑1 (MQ=255)
                                            gATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTg                                  <  1:1502902/56‑1 (MQ=255)
                                             gtAGAGATACGTTTTGTTGGCAGAGCCGCCGCCTTTCGCAACGCAAAGGAATTTGTACTCATCGCCATc                    <  1:1750586/68‑1 (MQ=255)
                                             gtAGAGATACGTTTTGTTGGCAGAGCCGCCGCCTTTCGCAACGCAAAGGAATTTGTACTCATCGCCATc                    <  1:184854/68‑1 (MQ=255)
                                             aTAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATc                    <  1:4116209/69‑1 (MQ=255)
                                             aTAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATc                    <  1:1020268/69‑1 (MQ=255)
                                             aTAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCaa                  <  1:3230301/71‑1 (MQ=255)
                                             aTAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTAGTCGCCATc                    <  1:4432689/69‑1 (MQ=255)
                                              tAGAGATACGTTTTGTTGGCAGAGCCGCCGCCTTTCGCAACGCAAAGGAATTTGTACTCATCGCCAt                     >  1:1283257/1‑67 (MQ=255)
                                              tAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCAAc                 >  1:1370218/1‑71 (MQ=255)
                                                   aTACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCAACGGCa             >  1:2072584/1‑70 (MQ=255)
                                                   aTACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCAACGGCa             >  1:2886802/1‑70 (MQ=255)
                                                    tACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTa                                <  1:896968/50‑1 (MQ=255)
                                                    tACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCAATCAACGGCAt            >  1:2007269/1‑70 (MQ=255)
                                                     aCGTTTTGTTGGCAGAGCCGCCGCCTTTCGCAACGCAAAGGAATTTGTACtcatcg                         >  1:2748907/1‑56 (MQ=255)
                                                     aCGTTTTGTTGGCAGAGCCGCCGCCTTTCGCAACGCAAAGGAATTTGTACTCATCGCCATcta                  >  1:2418078/1‑61 (MQ=255)
                                                     aCGTCTTGTTTGCCGAACCACCACCTTTGGCGATACaga                                          >  1:2055945/1‑39 (MQ=255)
                                                     aCGTCTTGTTTGCCGAACCACCACCTTTGGCGATACaga                                          >  1:1900631/1‑39 (MQ=255)
                                                      cGTTTTGTTGGCAGAGCCGCCGCCTTTCGCAACGCAAAGGAATTTGTACTCATCGCCATCTACCGCGTaca         <  1:4390952/71‑3 (MQ=255)
                                                       gTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTg                                  <  1:5538074/45‑1 (MQ=255)
                                                       gTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTg                                  <  1:1648357/45‑1 (MQ=255)
                                                       gTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTg                                  <  1:5427927/45‑1 (MQ=255)
                                                        ttttgttgGCAGAGCCGCCGCCTTTCGCAACGCAAAGGAATTTGTACTCATCGCCATCTACCGCGTACAgg       >  1:2328173/3‑70 (MQ=255)
                                                         cTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAAt                                     <  1:1160647/40‑1 (MQ=255)
                                                          ttGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTAt                               <  1:1750528/45‑1 (MQ=255)
                                                          ttGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCAACGGCATa           >  1:5291368/1‑65 (MQ=255)
                                                          ttGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCAACGGCATAAAga       <  1:1196073/69‑1 (MQ=255)
                                                            gTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTg                                  <  1:2019427/40‑1 (MQ=255)
                                                            gTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCaa                  >  1:4382572/1‑56 (MQ=255)
                                                             tttGCCGAACCACCACCTTTGGCGATACAGAGGAAttt                                   <  1:3977140/38‑1 (MQ=255)
                                                             tttGCCGAACCACCACCTTTGGCGATACAGAGGAAttt                                   <  1:3911620/38‑1 (MQ=255)
                                                             tttGCCGAACCACCACCTTTGGCGATACAGAGGAAttt                                   <  1:4485693/38‑1 (MQ=255)
                                                             tttGCCGAACCACCACCTTTGGCGATACAGAGGAAttt                                   <  1:1592012/38‑1 (MQ=255)
                                                             tttGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCAACGGCATAAAgatcgat  >  1:360859/1‑71 (MQ=255)
                                                             tttGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCAACGGCATAAAgatcga   >  1:453718/1‑70 (MQ=255)
                                                               tGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGt                                 >  1:4518594/1‑38 (MQ=255)
                                                               tGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGt                                 >  1:3242740/1‑38 (MQ=255)
                                                               tGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGt                                 >  1:2529448/1‑38 (MQ=255)
                                                               |                                                                    
GTAATTTTTCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCAACGGCATAAAGATCGAT  >  minE/1015436‑1015567

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