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
A2 F1 I0 R1 4577 57.4 3436498 77.7% 2670158 63.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,914,053 G→A 28.0% F473F (TTC→TTT)  ptsP ← fused PEP‑protein phosphotransferase (enzyme I) of PTS system

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,914,0530GA28.0% 112.5 / 42.9 103F473F (TTC→TTT) ptsPfused PEP‑protein phosphotransferase (enzyme I) of PTS system
Reads supporting (aligned to +/- strand):  ref base G (38/36);  new base A (15/14);  total (53/50)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 106 total aligned reads displayed.

GGGTTTATCATTGAACATTTGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGCCATCAATACGGCTGCCCAG  >  minE/1913990‑1914121
                                                               |                                                                    
gggTTTATCATTGAACATTTGCAGCATCCCCTGATACTGCGCTACCTGTTCTTCTTCCGACGGGAAAcc                                                                 <  1:2293515/69‑1 (MQ=255)
gggTTTATCATTGAACATTTGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAAcc                                                                 <  1:1096857/69‑1 (MQ=255)
gggTTTATCATTGAACATTTGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAAcc                                                                 <  1:1626563/69‑1 (MQ=255)
gggTTTATCATTGAACATTTGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAAcc                                                                 <  1:2131786/69‑1 (MQ=255)
gggTTTATCATTGAACATTTGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAAcc                                                                 <  1:3420983/69‑1 (MQ=255)
gggTTTATCATTGAACATTTGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAAcc                                                                 <  1:2565274/69‑1 (MQ=255)
gggTTTATCATTGAACATTTGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAAcc                                                                 <  1:1358160/69‑1 (MQ=255)
gggTTTATCATTGAACATTTGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAAcc                                                                 <  1:3219753/69‑1 (MQ=255)
   tttATCATTGAACATTTGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACt                                                              >  1:2901424/1‑69 (MQ=255)
            gAACATTTGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACTTTgcagca                                                      >  1:1269604/1‑68 (MQ=255)
              aCATTTGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATg                                                    <  1:3147597/68‑1 (MQ=255)
              aCATTTGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATg                                                    <  1:2985318/68‑1 (MQ=255)
              aCATTTGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATg                                                    <  1:1875403/68‑1 (MQ=255)
              aCATTTGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATg                                                    <  1:1081789/68‑1 (MQ=255)
              aCATTTGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGAAAACCACTTTGCAGCATGa                                                   >  1:3175018/1‑69 (MQ=255)
              aCATTTGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGAAAACCACTTTGCAGCATGa                                                   >  1:695784/1‑69 (MQ=255)
              aCATTTGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGAAAACCACTTTGCAGCATGa                                                   >  1:2074476/1‑69 (MQ=255)
              aCATTTGCAGCATCCCCTGATAATGCGCCACCTGTTCTTCTTCCGACGGAAAACCACttt                                                            >  1:1503931/1‑60 (MQ=255)
                 tttGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGAAAACCACTTTGCAGCATGAATg                                                <  1:1830273/69‑1 (MQ=255)
                 tttGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGAAAACCACTTTGCAGCATGAATg                                                <  1:1312534/69‑1 (MQ=255)
                 tttGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGAAAACCACTTTGCAGCATGAATg                                                <  1:1647646/69‑1 (MQ=255)
                 tttGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGAAAACCACTTTGCAGCATGAATg                                                <  1:448586/69‑1 (MQ=255)
                 tttGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGAAAACCACTTTGCAGCATGAATg                                                <  1:1568683/69‑1 (MQ=255)
                 tttGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGAAAACCACTTTGCAGCATGAATg                                                <  1:436722/69‑1 (MQ=255)
                 tttGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGAAAACCACTTTGCAGCATGAATg                                                <  1:2507255/69‑1 (MQ=255)
                 tttGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGAAAACCACTTTGCAGCATGAATg                                                <  1:3246785/69‑1 (MQ=255)
                 tttGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGAAAACCACTTTGCAGCATGAATg                                                <  1:2814325/69‑1 (MQ=255)
                 tttGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGAAAACCACTTTGCAGCATGAATg                                                <  1:2837136/69‑1 (MQ=255)
                 tttGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGAAAACCACTTTGCAGCATGAATg                                                <  1:2887361/69‑1 (MQ=255)
                 tttGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGAAAACCACTTTGCAGCATGAATg                                                <  1:2978665/69‑1 (MQ=255)
                        caTCCCCTGATACTGCGCCACCTGTTCTTCTTCTGACGGGAAACCACTTTGCAGCATGAATGGGATTTc                                         <  1:22159/69‑1 (MQ=255)
                        caTCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTc                                         <  1:2497579/69‑1 (MQ=255)
                        caTCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTc                                         <  1:809677/69‑1 (MQ=255)
                        caTCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTc                                         <  1:2365930/69‑1 (MQ=255)
                        caTCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTc                                         <  1:1387936/69‑1 (MQ=255)
                        caTCCCATGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTc                                         <  1:2250301/69‑1 (MQ=255)
                            cccTGATACTGCGCCACCTGTTCTTCTTCCGACGGAAAACCACTTTGCAGCATGAATg                                                <  1:3411266/58‑1 (MQ=255)
                                gATACTGCGCCACCTGTTCTTCTTCCGACTGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGa                                  >  1:2927398/1‑68 (MQ=255)
                                   aCTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATa                                <  1:1553690/67‑1 (MQ=255)
                                   aCTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATa                                <  1:3327962/67‑1 (MQ=255)
                                    cTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGAt                                            >  1:2560111/1‑54 (MQ=255)
                                    cTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGAt                                            >  1:1449154/1‑54 (MQ=255)
                                    cTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGAt                                            >  1:1388248/1‑54 (MQ=255)
                                    cTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGAt                                            >  1:1141103/1‑54 (MQ=255)
                                    cTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGAt                                            >  1:466227/1‑54 (MQ=255)
                                      gcgcCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAg                             >  1:1346475/1‑67 (MQ=255)
                                      gcgcCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGa                            >  1:1197068/1‑68 (MQ=255)
                                      gcgcCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGa                            >  1:42081/1‑68 (MQ=255)
                                      gcgcCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGa                            >  1:1838453/1‑68 (MQ=255)
                                      gcgcCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGa                            >  1:498402/1‑68 (MQ=255)
                                      gcgcCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGa                            >  1:1437634/1‑68 (MQ=255)
                                      gcgcCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGa                            >  1:687361/1‑68 (MQ=255)
                                      gcgcCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGa                            >  1:2181135/1‑68 (MQ=255)
                                      gcgcCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGa                            >  1:1634931/1‑68 (MQ=255)
                                      gcgcCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGa                            >  1:2334011/1‑68 (MQ=255)
                                         ccACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGTTTTCAGTGCGATAAAGACCGa                        <  1:2801871/69‑1 (MQ=255)
                                         ccACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGa                        <  1:3426965/69‑1 (MQ=255)
                                         ccACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGa                        <  1:125734/69‑1 (MQ=255)
                                         ccACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGa                        <  1:1951965/69‑1 (MQ=255)
                                          cACCTGTTCTTCTTCCGACGGAAAACCACTTTGCAGCATGAATg                                                <  1:621850/44‑1 (MQ=255)
                                            ccTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGc                     >  1:3190814/1‑69 (MQ=255)
                                            ccTGTCCTTCTTCCGACGGGAATCCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGc                     >  1:3123671/1‑69 (MQ=255)
                                              tGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATg                                                    >  1:2706113/1‑36 (MQ=255)
                                              tGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATg                                                    >  1:1288667/1‑36 (MQ=255)
                                              tGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATaaa                              <  1:840315/58‑1 (MQ=255)
                                              tGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATaaa                              <  1:823494/58‑1 (MQ=255)
                                              tGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATaaa                              <  1:2156605/58‑1 (MQ=255)
                                              tGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATaaa                              <  1:3381082/58‑1 (MQ=255)
                                              tGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATaaa                              <  1:2992477/58‑1 (MQ=255)
                                              tGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATaaa                              <  1:217886/58‑1 (MQ=255)
                                              tGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGcc                    >  1:405756/1‑68 (MQ=255)
                                              tGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGcc                    >  1:696891/1‑68 (MQ=255)
                                              tGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGcc                    >  1:571033/1‑68 (MQ=255)
                                              tGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGcc                    >  1:1326334/1‑68 (MQ=255)
                                              tGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGcc                    >  1:2651392/1‑68 (MQ=255)
                                              tGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGcc                    >  1:534881/1‑68 (MQ=255)
                                              tGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGcc                    >  1:1476579/1‑68 (MQ=255)
                                              tGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGc                     >  1:35012/1‑67 (MQ=255)
                                              tGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGc                     >  1:2710306/1‑67 (MQ=255)
                                              tGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATAGGATTTCAGTGCGATAAAGACCGAt                       >  1:1351841/1‑65 (MQ=255)
                                                ttcttcttcCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGCCATc                 >  1:1381028/1‑69 (MQ=255)
                                                ttcttcttcCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGCCATc                 >  1:1585130/1‑69 (MQ=255)
                                                ttcttcttcCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGCCATc                 >  1:2888010/1‑69 (MQ=255)
                                                ttcttcttcCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGCCATc                 >  1:586845/1‑69 (MQ=255)
                                                  cttcttcCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGCCATCaa               <  1:887716/69‑1 (MQ=255)
                                                  cttcttcCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGCCATCaa               <  1:2528679/69‑1 (MQ=255)
                                                  cttcttcCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGCCATCaa               <  1:1847891/69‑1 (MQ=255)
                                                  cttcttcCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGCCATCaa               <  1:141044/69‑1 (MQ=255)
                                                        ccGACGGAAAACCACTTTGCAGCATGAATGGGATTTCAGt                                      >  1:810086/1‑40 (MQ=255)
                                                        ccGACGGAAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGTCCTATGCCATCAATACGGc         >  1:2322115/1‑69 (MQ=255)
                                                        ccGACGGAAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGTCCTATGCCATCAATACGGc         >  1:2207469/1‑69 (MQ=255)
                                                        ccGACGGAAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGTCCTATGCCATCAATACGGc         >  1:659346/1‑69 (MQ=255)
                                                        ccGACGGAAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGTCCTATGCCATCAATACGGc         >  1:1839343/1‑69 (MQ=255)
                                                        ccGACGGAAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGTCCTATGCCATCAATACGGc         >  1:1806032/1‑69 (MQ=255)
                                                        ccGACGGAAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGTCCTATGCCATCAATACGGc         >  1:1760500/1‑69 (MQ=255)
                                                        ccGACGGAAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGTCCTATGCCATCAATACGGc         >  1:1189679/1‑69 (MQ=255)
                                                        ccGACGGAAAACAACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGTCCTATGCCATCAATACGGc         >  1:1151098/1‑69 (MQ=255)
                                                               gAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGCCATCAATACGGCTGCCCAg  <  1:2587446/69‑1 (MQ=255)
                                                               gAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGCCATCAATACGGCTGCCCAg  <  1:566810/69‑1 (MQ=255)
                                                               gAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGCCATCAATACGGCTGCCCAg  <  1:871905/69‑1 (MQ=255)
                                                               |                                                                    
GGGTTTATCATTGAACATTTGCAGCATCCCCTGATACTGCGCCACCTGTTCTTCTTCCGACGGGAAACCACTTTGCAGCATGAATGGGATTTCAGTGCGATAAAGACCGATGCCATCAATACGGCTGCCCAG  >  minE/1913990‑1914121

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