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 F21 I0 R1	2169	63.0	3952800	76.2%	3012033	62.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	1,933,153	C→T	12.6%	L430L (CTG→CTA)	lysS ←	lysine tRNA synthetase, constitutive

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,933,153	0	C	T	12.6%	256.2 / 20.7	95	L430L (CTG→CTA)	lysS	lysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand): ref base C (46/37); new base T (10/2); total (56/39)
Fisher's exact test for biased strand distribution p-value = 1.14e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGT  >  minE/1933086‑1933223

cgtcgtCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGc                                                                     >  1:2262898/1‑71 (MQ=255)

 gtcgtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGc                                                                     <  1:1384504/70‑1 (MQ=255)

 gtcgtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCt                                                                    <  1:2906310/71‑1 (MQ=255)

       aCCTGCGTCTTTCTCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTa                                                               >  1:3859545/1‑70 (MQ=255)

       aCCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTaa                                                              <  1:3903421/71‑1 (MQ=255)

       aCCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTa                                                               <  1:2483047/70‑1 (MQ=255)

       aCCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGAGTCATTCAGCTCGCTa                                                               <  1:2476857/70‑1 (MQ=255)

        ccTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTaaa                                                             <  1:3922048/71‑1 (MQ=255)

         cTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                                                            >  1:1897727/1‑71 (MQ=255)

           tcGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTa                                                               <  1:2827202/65‑1 (MQ=255)

           gCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGcc                                                          >  1:2650001/1‑71 (MQ=255)

           gCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGc                                                           >  1:1698278/1‑70 (MQ=255)

             gTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCa                                                                       >  1:1552691/1‑56 (MQ=255)

             gTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGt                                                        <  1:2317057/71‑1 (MQ=255)

              tCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGtt                                                       <  1:3289036/71‑1 (MQ=255)

               cTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGtt                                                       <  1:2592423/70‑1 (MQ=255)

               cTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTa                                                      >  1:242409/1‑71 (MQ=255)

                 ttCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAcc                                                    >  1:313799/1‑71 (MQ=255)

                  tCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAcc                                                    <  1:1573752/70‑1 (MQ=255)

                  tCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAc                                                     <  1:3486576/69‑1 (MQ=255)

                   cgcgGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGa                                                  >  1:1126789/1‑71 (MQ=255)

                    gcgGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAt                                                 >  1:2037557/1‑71 (MQ=255)

                      ggCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAtt                                                <  1:403066/70‑1 (MQ=255)

                       gCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTc                                              <  1:2295148/71‑1 (MQ=255)

                        taaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCa                                             >  1:1499791/2‑71 (MQ=255)

                        cAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                                                            <  1:3034267/56‑1 (MQ=255)

                        cAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                                                            <  1:1790523/56‑1 (MQ=255)

                         aaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAAcca                                                         >  1:1929449/1‑57 (MQ=255)

                          aCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                                                            <  1:2360341/54‑1 (MQ=255)

                          aCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACg                                           <  1:573730/71‑1 (MQ=255)

                           ccTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGa                                          >  1:3502104/1‑71 (MQ=255)

                            cTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGac                                         <  1:1682021/71‑1 (MQ=255)

                             tGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                                               <  1:458023/64‑1 (MQ=255)

                              gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacca                                       >  1:1219652/1‑71 (MQ=255)

                              gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacca                                       >  1:3153879/1‑71 (MQ=255)

                               ttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccac                                      >  1:1321896/2‑71 (MQ=255)

                               ttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGa                                          >  1:1303462/2‑67 (MQ=255)

                               ttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGa                                          >  1:1094129/2‑67 (MQ=255)

                               aTCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGaccac                                      >  1:1386299/1‑71 (MQ=255)

                               aTCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacc                                        <  1:1249779/69‑1 (MQ=255)

                               aTCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacc                                        <  1:3179727/69‑1 (MQ=255)

                                tCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccacc                                     >  1:438114/1‑71 (MQ=255)

                                tCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccacc                                     >  1:433552/1‑71 (MQ=255)

                                tCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccac                                      >  1:1477415/1‑70 (MQ=255)

                                tCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCg                                                   >  1:1966535/1‑57 (MQ=255)

                                tCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGaccac                                      >  1:3856698/1‑70 (MQ=255)

                                 ccAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGaccacc                                     >  1:222669/1‑70 (MQ=255)

                                 ccAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacca                                       >  1:2677720/1‑68 (MQ=255)

                                  cAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGa                                          >  1:2628038/1‑64 (MQ=255)

                                   aGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAAt                                  >  1:1174807/1‑71 (MQ=255)

                                      aaGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacca                                       >  1:2579610/1‑63 (MQ=255)

                                      aaGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacca                                       >  1:2291577/1‑63 (MQ=255)

                                      aaGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATg                                 >  1:2422718/1‑69 (MQ=255)

                                       aGCGTTGCGCCTGATCTTCCGCGTCATTTAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATgaag                              <  1:3100201/71‑1 (MQ=255)

                                       aGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATgaag                              <  1:588970/71‑1 (MQ=255)

                                       aGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATg                                 >  1:2820078/1‑68 (MQ=255)

                                       aGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATg                                 >  1:811197/1‑68 (MQ=255)

                                       aGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATg                                 >  1:2028881/1‑68 (MQ=255)

                                          gTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATga                                <  1:1899667/66‑1 (MQ=255)

                                           ttGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACt                          <  1:2981290/71‑1 (MQ=255)

                                             gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGa                                                  >  1:1412504/1‑45 (MQ=255)

                                             gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGac                                         >  1:969420/1‑54 (MQ=255)

                                             gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTc                         >  1:1515216/1‑70 (MQ=255)

                                             gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTc                         >  1:2710334/1‑70 (MQ=255)

                                             cagcCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGa                                                  >  1:396237/3‑45 (MQ=255)

                                              cgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCaa                       <  1:3357953/71‑1 (MQ=255)

                                                 cTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATg                                 <  1:2190432/58‑1 (MQ=255)

                                                  tGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCAAAACg                   >  1:2342460/1‑71 (MQ=255)

                                                  tGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATg                                 <  1:3537468/57‑1 (MQ=255)

                                                  tGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTc                         <  1:969005/65‑1 (MQ=255)

                                                  tGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCg                   >  1:1873221/1‑71 (MQ=255)

                                                   gATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACTACCAATGAAGAACTCAAAGCgg                  >  1:3859767/1‑71 (MQ=255)

                                                   gATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCaaa                      <  1:3848389/67‑1 (MQ=255)

                                                   gATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCgg                  >  1:3929879/1‑71 (MQ=255)

                                                    aTCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCgg                  >  1:1730122/1‑70 (MQ=255)

                                                     tCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTc                >  1:3757949/1‑71 (MQ=255)

                                                       ttCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATgaagaa                            <  1:2467497/57‑1 (MQ=255)

                                                       ttCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATgaaga                             >  1:569602/1‑56 (MQ=255)

                                                       ttCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCt               >  1:1161900/1‑70 (MQ=255)

                                                        tCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtgt             >  1:3914162/1‑71 (MQ=255)

                                                        tCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtgt             >  1:3499349/1‑71 (MQ=255)

                                                         ccGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtgt             >  1:2034309/1‑70 (MQ=255)

                                                         ccGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtg              <  1:1455201/69‑1 (MQ=255)

                                                         ccGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtg              <  1:1450719/69‑1 (MQ=255)

                                                            cgTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGAtt         <  1:2907455/71‑1 (MQ=255)

                                                                aTTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCaaa                      >  1:836713/1‑54 (MQ=255)

                                                                aTTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTcc      <  1:2887362/70‑1 (MQ=255)

                                                                aTTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTcc      <  1:1689755/70‑1 (MQ=255)

                                                                aTTCAGCTCGCTAAAGCCGTTACCGATTTCACGACAACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCg     <  1:703898/71‑1 (MQ=255)

                                                                 ttCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCt               <  1:191498/60‑1 (MQ=255)

                                                                  tCAGCTCGCTAAAGCCGTTACCGATTTCACGAccacca                                    >  1:3274912/1‑38 (MQ=255)

                                                                  tCAGCTCGCTAAAGCCGTTACCGATTTCACGAccacca                                    >  1:1118770/1‑38 (MQ=255)

                                                                  tCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCggg   >  1:2238909/1‑71 (MQ=255)

                                                                  tCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCggg   >  1:2316328/1‑71 (MQ=255)

                                                                  tCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCgg    >  1:2220784/1‑70 (MQ=255)

                                                                   cAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGt  >  1:3167449/1‑71 (MQ=255)

CGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGT  >  minE/1933086‑1933223

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