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	1,259,358	G→A	22.7%	N522N (AAC→AAT)	torZ ←	trimethylamine N‑oxide reductase system III, catalytic subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,259,358	0	G	A	22.7%	318.5 / 87.3	167	N522N (AAC→AAT)	torZ	trimethylamine N‑oxide reductase system III, catalytic subunit
Reads supporting (aligned to +/- strand): ref base G (65/64); new base A (19/19); total (84/83)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.45e-01

Only 100 of 172 total aligned reads displayed.

AAACACGTCAAAATCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGTAATACGATATC  >  minE/1259289‑1259426

aaaCACGTCAAAATCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGt                                                                     <  1:5160103/71‑1 (MQ=255)

    acGTCAAAATCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCt                                                                 <  1:3570864/71‑1 (MQ=255)

       tCAAAATCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTa                                                              <  1:1852202/71‑1 (MQ=255)

       tCAAAATCATTACGCGCTTCATAGCGTGGCGGCACCACTTGCTTCATCGGCACCAGATGCTGATTACTGTa                                                              <  1:2676923/71‑1 (MQ=255)

       tCAAAATCATTACGCGCTTCATAGCGTGGCGGCACCACTTGCTTCATCGGCACCAGATGCTGATTACTGTa                                                              <  1:1980557/71‑1 (MQ=255)

       tCAAAATCATTACGCGCTTCATAGCGTGGCGGCACCACTTGCTTCATCGGCACCAGATGCTGATTACTGTa                                                              <  1:832803/71‑1 (MQ=255)

         aaaaTCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTaa                                                             >  1:1025002/1‑70 (MQ=255)

         aaaaTCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAAt                                                            >  1:2360281/1‑71 (MQ=255)

         aaaaTCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAAt                                                            >  1:283912/1‑71 (MQ=255)

         aaaaTCATTACGCGCTTCATAGCGTGGCGGCACCACTTGCTTCATCGGCACCAGATGCTGAtta                                                                   >  1:3493256/1‑63 (MQ=255)

          aaaTCATTACGCGCTTCATAGCGTGGCGGCACCACTTGCTTCATCGGCACCAGATGCTGATTACTGTAATc                                                           <  1:52890/71‑1 (MQ=255)

           aaTCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCt                                                                 >  1:4330394/1‑64 (MQ=255)

             tCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCt                                                                 <  1:5148167/62‑1 (MQ=255)

               gTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCgg                                                      >  1:1723786/1‑71 (MQ=255)

                  aCGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCa                                                   >  1:836881/1‑71 (MQ=255)

                    gcgcTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATc                                                 <  1:5524540/71‑1 (MQ=255)

                      gcTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCAc                                                         >  1:5050578/1‑61 (MQ=255)

                      gcTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGt                                               >  1:54923/1‑71 (MQ=255)

                      gcTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGt                                               >  1:189498/1‑71 (MQ=255)

                       cTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGc                                                                  <  1:3651464/51‑1 (MQ=255)

                       cTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGc                                                                  <  1:3094771/51‑1 (MQ=255)

                       cTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCt                                                                 >  1:5582834/1‑52 (MQ=255)

                        ttCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGt                                                               <  1:937645/53‑1 (MQ=255)

                        ttCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGt                                                               <  1:3300172/53‑1 (MQ=255)

                         tCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTc                                              >  1:856251/1‑69 (MQ=255)

                          cAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCa                                             <  1:3461462/69‑1 (MQ=255)

                           aaaTTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATc                                                 >  1:1534788/1‑64 (MQ=255)

                              ttGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAAtac                                                          >  1:1033626/1‑50 (MQ=255)

                              ttGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCAt                                       <  1:5566292/71‑1 (MQ=255)

                                   gAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCa                                        <  1:2915445/65‑1 (MQ=255)

                                    aGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCt                                 >  1:4602458/1‑71 (MQ=255)

                                      cAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTc                                >  1:3774467/1‑70 (MQ=255)

                                        aCAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCAtt                                      >  1:4889175/1‑62 (MQ=255)

                                        aCAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCaaa                             <  1:4148397/71‑1 (MQ=255)

                                        aCAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCaaa                             >  1:4710690/1‑71 (MQ=255)

                                        aCAGCCTGCTTCATAGGCACAATATGCTGGTTGATGt                                                               >  1:5093352/1‑37 (MQ=38)

                                         cAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGt                                          <  1:878753/57‑1 (MQ=255)

                                         cAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAAc                            >  1:5322952/1‑71 (MQ=255)

                                         cAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAAc                            <  1:658400/71‑1 (MQ=255)

                                         cAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAAc                            <  1:1167206/71‑1 (MQ=255)

                                          aGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAAc                            >  1:4465805/1‑70 (MQ=255)

                                           gCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCa                                        >  1:3182833/1‑57 (MQ=255)

                                           gCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCa                                        >  1:909550/1‑57 (MQ=255)

                                           gCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGa                          >  1:2465211/1‑71 (MQ=255)

                                            cttGCTTCATCGGCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCATTACGCTCAAAAGag                         >  1:4764540/3‑70 (MQ=255)

                                             ttGCTTCATCGGCACCAGATGCTGATTACTGTAAt                                                            >  1:4957641/2‑35 (MQ=19)

                                             ttGCTTCATCGGCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCAtt                                      <  1:1105413/56‑1 (MQ=255)

                                             ttGCTTCATCGGCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCAtt                                      <  1:2268699/56‑1 (MQ=255)

                                             ttGCTTCATCGGCACCAGATGCTGAATACTGTAATCACCGGTCATGGTGAGATCATTACGCTCaaaag                           <  1:3971516/67‑3 (MQ=255)

                                             cTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGAtg                        <  1:2590335/71‑1 (MQ=255)

                                             cTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGAtg                        <  1:71537/71‑1 (MQ=255)

                                              tGCTTCATCGGCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCATTACGCTCAAAAGagg                        >  1:299908/1‑68 (MQ=255)

                                              tGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGAtgt                       >  1:1590814/1‑71 (MQ=255)

                                              tGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCCCTCAAACGAtgt                       >  1:3636816/1‑71 (MQ=255)

                                               gCTTCATCGGCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCATTACGCTCAAAAGagg                        >  1:4307876/1‑67 (MQ=255)

                                               gCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGAtgtg                      >  1:5045382/1‑71 (MQ=255)

                                               gCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGAtgtg                      >  1:3430096/1‑71 (MQ=255)

                                                cTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATgtgg                     <  1:3553840/71‑1 (MQ=255)

                                                 ttCATCGGCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCAtt                                      >  1:3026116/1‑53 (MQ=255)

                                                 ttCATCGGCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCAtt                                      >  1:3875618/1‑53 (MQ=255)

                                                 ttCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAAc                            <  1:5655367/63‑1 (MQ=255)

                                                 ttCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAAc                            <  1:1552641/63‑1 (MQ=255)

                                                  tCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATgtggt                    >  1:3802995/1‑70 (MQ=255)

                                                  tCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATgtggt                    >  1:3032629/1‑70 (MQ=255)

                                                  tCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATgtggt                    >  1:4743670/1‑70 (MQ=255)

                                                   cATCGGCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCAtta                                     >  1:1894571/1‑51 (MQ=255)

                                                   cATCGGCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCAtta                                     >  1:4800512/1‑51 (MQ=255)

                                                   cATCGGCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCAtta                                     >  1:1386202/1‑51 (MQ=255)

                                                    aTCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGAt                 <  1:3427176/71‑1 (MQ=255)

                                                    aTCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGAt                 <  1:1655858/71‑1 (MQ=255)

                                                    aTCGGCACAATATGCTGGTTGCTGTAATCACCCGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGAt                 <  1:5504730/71‑1 (MQ=255)

                                                     tCGGCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCATTACGCTCAAAAGAGgtagt                    <  1:221067/67‑1 (MQ=255)

                                                     tCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCa                               <  1:3467363/56‑1 (MQ=255)

                                                     tCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCa                               <  1:4401480/56‑1 (MQ=255)

                                                     tCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCa                               <  1:5094596/56‑1 (MQ=255)

                                                     tCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGAtgt                       <  1:2926890/64‑1 (MQ=255)

                                                      cGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCg               >  1:2755171/1‑71 (MQ=255)

                                                       ggCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCATTacg                                   >  1:1250668/1‑50 (MQ=255)

                                                       ggCACAATATGCTGGTTGCTGTAATCACCGGTCATCg                                                >  1:5523363/1‑37 (MQ=255)

                                                       ggCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCgg              >  1:523185/1‑71 (MQ=255)

                                                        gCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACg                           <  1:2905550/57‑1 (MQ=255)

                                                         cacaATATGCTGGTTGCTGTAATCACCGGTCATCGTc                                              >  1:4143862/1‑37 (MQ=255)

                                                         cacaATATGCTGGTTGCTGTAATCACCGGTCATCGTc                                              >  1:4058507/1‑37 (MQ=255)

                                                          acaATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGTaa           <  1:4583160/71‑1 (MQ=255)

                                                           caATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGTaa           <  1:490495/70‑1 (MQ=255)

                                                            aaTATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGTAATa         <  1:5124843/71‑1 (MQ=255)

                                                              tatGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTTCGCTCAAACGATGTGGTGATCGGTAATACg       <  1:3512811/71‑1 (MQ=255)

                                                              tatGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACg                           <  1:318329/51‑1 (MQ=255)

                                                               atGCTGATTACTGTAATCACCGGTCATGGTGAGATCATTACGCTCAAAAGAggtag                     <  1:2164032/56‑3 (MQ=255)

                                                               atGCTGATTACTGTAATCACCGGTCATGGTGAGATCATTACGCTCAAAAGAggtag                     <  1:2080798/56‑3 (MQ=255)

                                                               atGCTGATTACTGTAATCACCGGTCATGGTGAGATCATTACGCTCAAAAGAggtag                     <  1:1144911/56‑3 (MQ=255)

                                                               atGCTGATTACTGTAATCACCGGTCATGGTGAGATCATTACGCTCAAAAGAggtag                     <  1:2124817/56‑3 (MQ=255)

                                                                tGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCg               <  1:1206339/61‑1 (MQ=255)

                                                                 gCTGATTACTGTAATCACCGGTCATGGTGAGATCATTACGCTc                                <  1:1286203/43‑1 (MQ=12)

                                                                 gCTGATTACTGTAATCACCGGTCATGGTGAGATCATTACGCTCAAAAGAGgtagtc                   >  1:1265162/1‑55 (MQ=255)

                                                                  cTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGt             >  1:1988109/1‑61 (MQ=255)

                                                                    ggTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGAtgtg                      <  1:5403246/50‑1 (MQ=255)

                                                                    ggTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGAtgtg                      <  1:5346000/50‑1 (MQ=255)

                                                                    ggTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGAtgtg                      <  1:4555315/50‑1 (MQ=255)

                                                                    ggTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATgtgg                     >  1:1739802/1‑51 (MQ=255)

AAACACGTCAAAATCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGTAATACGATATC  >  minE/1259289‑1259426

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A