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	835,001	G→A	27.6%	Q1153Q (CAG→CAA)	narG →	nitrate reductase 1, alpha subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	835,001	0	G	A	27.6%	165.7 / 66.2	105	Q1153Q (CAG→CAA)	narG	nitrate reductase 1, alpha subunit
Reads supporting (aligned to +/- strand): ref base G (38/38); new base A (17/12); total (55/50)
Fisher's exact test for biased strand distribution p-value = 5.14e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.91e-01

Only 100 of 123 total aligned reads displayed.

TCGCCGATAACGACTGGATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTCGGA  >  minE/834931‑835069

tCGCCGATAACGACTGGATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTcagccag                                                                      >  1:3045687/1‑71 (MQ=255)

  gtcGATAACGACTGGGTGGAAGTATTCAACGCCAACGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACg                                                                    >  1:3982122/3‑71 (MQ=255)

  gtcGATAACGACTGGGTGGAAGTATTCAACGCCAACGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACg                                                                    >  1:5386486/3‑71 (MQ=255)

  gCCGATAACGACTGGATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGGCAGCg                                                                    >  1:1210870/1‑71 (MQ=255)

  gCCGATAACGACTGGATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCg                                                                    >  1:5591984/1‑71 (MQ=255)

  gCCGATAACGACTGGATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCg                                                                    >  1:4128563/1‑71 (MQ=255)

     gATAACGACTGGGTGGAAGTATTCAACGCCAACGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACgtg                                                                  <  1:3609679/70‑1 (MQ=255)

      aTAACGACTGGGTGGAAGTATTCAACGCCAACGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACgtgta                                                                <  1:1640830/71‑2 (MQ=255)

      aTAACGACTGGATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGtt                                                                >  1:1871631/1‑71 (MQ=255)

       tAACGACTGGGTGGAAGTATTCAACGCCAACGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACgtgtac                                                               >  1:1578511/1‑69 (MQ=255)

       tAACGACTGGATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTc                                                               <  1:4348712/71‑1 (MQ=255)

        aaCGACTGGGTGGAAGTATTCAACGCCAACGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACGTGTAcc                                                              >  1:5064802/1‑71 (MQ=255)

        aaCGACTGGATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTcc                                                              >  1:4437493/1‑71 (MQ=255)

        aaCGACTGGATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTcc                                                              >  1:4115595/1‑71 (MQ=255)

           gACTGGGTGGAAGTATTCAACGCCAACGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACgtg                                                                  <  1:4456176/64‑1 (MQ=255)

           gACTGGGTGGAAGTATTCAACGCCAACGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACgtg                                                                  <  1:2911574/64‑1 (MQ=255)

           gACTGGATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGc                                                           <  1:3507533/71‑1 (MQ=255)

            aCTGGATTGAAGTCTTCAACAGAAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCa                                                          <  1:4126060/71‑1 (MQ=255)

             cTGGATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAg                                                         >  1:1206532/1‑71 (MQ=255)

                gATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAgg                                                        <  1:4414455/69‑1 (MQ=255)

                gATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAgg                                                        <  1:1166388/69‑1 (MQ=255)

                gATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAgg                                                        <  1:3777645/69‑1 (MQ=255)

                gATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGa                                                      >  1:5364934/1‑71 (MQ=255)

                    gAAGTATTCAACGCCAACGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGAc                                                  >  1:2012149/1‑71 (MQ=255)

                     aaGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGAc                                                  <  1:388643/70‑1 (MQ=255)

                      aGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGa                                                   >  1:1540180/1‑68 (MQ=255)

                      aGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCa                                                <  1:5112215/71‑1 (MQ=255)

                      aGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCa                                                <  1:114199/71‑1 (MQ=255)

                       gTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCat                                               >  1:4921961/1‑71 (MQ=255)

                       gTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCat                                               >  1:4671006/1‑71 (MQ=255)

                       gTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCat                                               >  1:1337076/1‑71 (MQ=255)

                          ttCAACGCCAACGGCGCGCTGACTGCCCGCGCGGGGGTCAGCCAACgtgt                                                                 <  1:4139325/50‑1 (MQ=12)

                          ttCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAgg                                                        <  1:828517/59‑1 (MQ=255)

                          ttCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAgg                                                        <  1:3374290/59‑1 (MQ=255)

                            cAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGAt                                                     >  1:783057/1‑60 (MQ=255)

                            cAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGAt                                                     >  1:1074713/1‑60 (MQ=255)

                               cAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTAcc                                       <  1:3832943/71‑1 (MQ=255)

                                gccAACGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCa                                      >  1:1251324/3‑71 (MQ=255)

                                 ccAACGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCAc                                     >  1:4609626/2‑71 (MQ=255)

                                   aaCGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCAcgc                                   >  1:1958381/1‑71 (MQ=255)

                                   aaCGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCAcgc                                   >  1:906405/1‑71 (MQ=255)

                                   aaCGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCAcgc                                   >  1:828027/1‑71 (MQ=255)

                                    aCGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAg                                                         <  1:3711934/48‑1 (MQ=255)

                                    aCGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTat                                        >  1:2708417/1‑64 (MQ=255)

                                    aCGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTat                                        >  1:2962100/1‑64 (MQ=255)

                                    aCGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTat                                        >  1:1890195/1‑64 (MQ=255)

                                    aCGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCAcgcc                                  >  1:3788152/1‑70 (MQ=255)

                                     cGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATg                                                    <  1:2474331/52‑1 (MQ=255)

                                       gTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAg                               <  1:1291937/71‑1 (MQ=255)

                                        tGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAgg                              <  1:859508/71‑1 (MQ=255)

                                            ctGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACg                          >  1:447976/1‑71 (MQ=255)

                                             tGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTTCGGCAGGGATGACCATGATGTACCACGCGCAGGAACg                          >  1:4915988/1‑70 (MQ=255)

                                              gACTGCCCGTGCGGTTGTCAGGCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTa                        >  1:4388736/1‑71 (MQ=255)

                                              gACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTa                        >  1:2540680/1‑71 (MQ=255)

                                               aCTGCCCGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCACGCCCAGGAACGCAt                       >  1:91440/1‑71 (MQ=255)

                                                 tGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCatgatg                                           <  1:1829981/49‑1 (MQ=255)

                                                   cccGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCg                     <  1:661469/69‑1 (MQ=255)

                                                   cccGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGtt                   <  1:4116101/71‑1 (MQ=255)

                                                   cccGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGt                    >  1:2246713/1‑70 (MQ=255)

                                                   cccGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCACGCCCAGGAACGCAttat                    <  1:3019946/70‑4 (MQ=255)

                                                   cccGCGCGGTGGTCAACCAACGTGTACCGCCGGGCATGACCATGATGTATCACGCCCAGGAACGCAttat                    >  1:45183/1‑67 (MQ=255)

                                                    ccGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGt                         <  1:3707454/64‑1 (MQ=255)

                                                    ccGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGt                         <  1:1621651/64‑1 (MQ=255)

                                                      gTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTAt                       <  1:2908133/64‑1 (MQ=255)

                                                       tGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCa                                                <  1:2566865/38‑1 (MQ=255)

                                                       tGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCa                                                <  1:2461041/38‑1 (MQ=255)

                                                       tGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTa                                         >  1:641543/1‑45 (MQ=255)

                                                       tGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTa                                         >  1:293482/1‑45 (MQ=255)

                                                       tGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTa                                         >  1:1371684/1‑45 (MQ=255)

                                                       tGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTa                                         >  1:1104819/1‑45 (MQ=255)

                                                       tGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGtt                   <  1:679706/67‑1 (MQ=255)

                                                       tGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGtt                   <  1:2860641/67‑1 (MQ=255)

                                                       tGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGtt                   <  1:3040612/67‑1 (MQ=255)

                                                       tGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAAcc               >  1:2168996/1‑71 (MQ=255)

                                                         cGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAAcctg             >  1:4223642/1‑71 (MQ=255)

                                                         cGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAAcctg             >  1:3045363/1‑71 (MQ=255)

                                                           gTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTAc                                        <  1:4478773/42‑1 (MQ=255)

                                                            ttGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAAcctgcct          <  1:2602551/71‑1 (MQ=255)

                                                            ttGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAAcctgcct          <  1:1044911/71‑1 (MQ=255)

                                                            ttGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAAcctgcct          <  1:3365965/71‑1 (MQ=255)

                                                              gTCAGCCAGCGTGTTCCGGCAGGGATGACCatgatg                                           >  1:1405320/1‑36 (MQ=255)

                                                              gTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACg                          >  1:1033878/1‑53 (MQ=255)

                                                              gTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTgg        >  1:4585703/1‑71 (MQ=255)

                                                              gTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCACGCCCa                                <  1:4638057/47‑1 (MQ=16)

                                                              gTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCACGCCCa                                <  1:2518405/47‑1 (MQ=16)

                                                              gTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCACGCCCa                                <  1:3277177/47‑1 (MQ=16)

                                                               tCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCACGCCCAGGAACGCAt                       <  1:3224699/55‑1 (MQ=255)

                                                                cagccagcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGtt      >  1:4710332/1‑71 (MQ=255)

                                                                cagccaacGTGTACCGCCGGGCATGACCATGATGTATCACGCCCAgg                              >  1:2456129/1‑47 (MQ=16)

                                                                 agccagcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTc     >  1:2082186/1‑71 (MQ=255)

                                                                 agccagcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTc     >  1:832669/1‑71 (MQ=255)

                                                                 agccagcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTc     >  1:839341/1‑71 (MQ=255)

                                                                  gccagcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTa                  <  1:5384197/57‑1 (MQ=255)

                                                                  gccagcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTa                  <  1:4065311/57‑1 (MQ=255)

                                                                   ccagcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTCgg   <  1:641250/71‑1 (MQ=255)

                                                                   ccagcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTCgg   <  1:4492449/71‑1 (MQ=255)

                                                                   ccagcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGCTTCgg   <  1:2188890/71‑1 (MQ=255)

                                                                   ccaacGTGTACCGCCGGGCATGACCATGATGTATCACGCCCAGGAACGCATTATGAATATTCCTGGTTCgg   <  1:3500068/71‑1 (MQ=255)

                                                                     agcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTCGGa  >  1:1111952/1‑70 (MQ=255)

                                                                     agcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTCGGa  <  1:5320507/70‑1 (MQ=255)

TCGCCGATAACGACTGGATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTCGGA  >  minE/834931‑835069

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