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	1,933,591	G→A	14.3%	Y284Y (TAC→TAT)	lysS ←	lysine tRNA synthetase, constitutive

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,933,591	0	G	A	14.3%	267.0 / 30.2	105	Y284Y (TAC→TAT)	lysS	lysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand): ref base G (47/43); new base A (7/8); total (54/51)
Fisher's exact test for biased strand distribution p-value = 7.84e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.24e-01

Only 100 of 106 total aligned reads displayed.

CCGAGAATATCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAG  >  minE/1933523‑1933660

ccGAGAATATCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTa                                                                     <  1:2822034/71‑1 (MQ=255)

   agaATATCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGc                                                                  >  1:1486025/1‑71 (MQ=255)

   agaATATCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGc                                                                  >  1:1038735/1‑71 (MQ=255)

       tatCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAg                                                                   >  1:2768729/1‑66 (MQ=255)

       tatCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATg                                                              >  1:1074683/1‑71 (MQ=255)

       tatCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATg                                                              >  1:768477/1‑71 (MQ=255)

       tatCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATg                                                              <  1:519088/71‑1 (MQ=255)

         tCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATg                                                              <  1:174480/69‑1 (MQ=255)

         tCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATg                                                              >  1:425492/1‑69 (MQ=255)

         tCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTa                                                            <  1:1605697/71‑1 (MQ=255)

         tCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTa                                                            <  1:3829995/71‑1 (MQ=255)

             gtgCCAGGGTGCGGAACAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGt                                                        >  1:2980744/1‑71 (MQ=255)

              tgCCAGGGTGCGGAACAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGtt                                                       <  1:1240079/71‑1 (MQ=255)

              tgCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGtt                                                       >  1:1981415/1‑71 (MQ=255)

                ccAGGGTGCGGAACAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTc                                                      >  1:1078007/1‑70 (MQ=255)

                ccAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATg                                                              <  1:786839/62‑1 (MQ=255)

                  agagTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCcat                                                   >  1:1115578/1‑71 (MQ=255)

                  agagTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCcat                                                   >  1:1726141/1‑71 (MQ=255)

                       gcGGAACAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCcatcattg                                              >  1:1729220/2‑69 (MQ=255)

                        cGGAACAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCcatcattg                                              <  1:90056/70‑3 (MQ=255)

                        cGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTag                                                           <  1:3330462/57‑1 (MQ=255)

                        cGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATgg                                              <  1:546070/70‑1 (MQ=255)

                        cGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGt                                             >  1:2260033/1‑71 (MQ=255)

                         ggAACAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATtgtg                                            <  1:3179668/71‑1 (MQ=255)

                         ggAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATgg                                              <  1:2105788/69‑1 (MQ=255)

                         ggAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGt                                             >  1:1987943/1‑70 (MQ=255)

                          gAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCAt                                                               <  1:3466422/51‑1 (MQ=255)

                          gAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCAt                                                               <  1:3551587/51‑1 (MQ=255)

                          gAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCAt                                                               <  1:2437724/51‑1 (MQ=255)

                           aaCAGTGACTCTGTCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGaa                                          >  1:3827449/1‑71 (MQ=255)

                           aaCAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGaa                                          >  1:1244421/1‑71 (MQ=255)

                              aGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCg                                                                       <  1:3917914/39‑1 (MQ=255)

                               gCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActct                                      <  1:2216259/71‑1 (MQ=255)

                               gCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActct                                      <  1:3855310/71‑1 (MQ=255)

                                cGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGTGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTg                                     <  1:1743573/71‑1 (MQ=255)

                                 gATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTaa                                                                    >  1:1856602/1‑39 (MQ=255)

                                 gATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActc                                       >  1:2322600/1‑68 (MQ=255)

                                 gATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTgg                                    >  1:485489/1‑71 (MQ=255)

                                   ttCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCcatca                                                 <  1:2949102/56‑1 (MQ=255)

                                   ttCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCcatca                                                 <  1:2876671/56‑1 (MQ=255)

                                   ttCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActct                                      <  1:1983370/67‑1 (MQ=255)

                                   ttCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGt                                  >  1:3195258/1‑71 (MQ=255)

                                   atCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAActct                                      <  1:3503072/66‑1 (MQ=255)

                                    tCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATg                                               >  1:2884053/1‑57 (MQ=255)

                                    tCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATg                                               >  1:146770/1‑57 (MQ=255)

                                     cGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTa                                >  1:777507/1‑71 (MQ=255)

                                     cGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTa                                >  1:3364686/1‑71 (MQ=255)

                                     cGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTa                                >  1:1169826/1‑71 (MQ=255)

                                       gTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGtt                                                       <  1:3207729/46‑1 (MQ=255)

                                        tCAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTAt                               <  1:607760/69‑1 (MQ=255)

                                        tCAGCTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATg                              <  1:2451787/70‑1 (MQ=255)

                                         cAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGaa                                          >  1:2092152/1‑57 (MQ=255)

                                         cAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGaa                                          >  1:3043963/1‑57 (MQ=255)

                                         cAGTTCAATCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTa                                <  1:3128010/67‑1 (MQ=255)

                                         cAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGAc                            >  1:3286051/1‑71 (MQ=255)

                                          aGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                           >  1:2663657/1‑71 (MQ=255)

                                           gCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACg                           >  1:1850673/1‑70 (MQ=255)

                                           gCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGt                          <  1:3595634/71‑1 (MQ=255)

                                           gCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGt                          <  1:1877632/71‑1 (MQ=255)

                                           gCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGt                          <  1:3933959/71‑1 (MQ=255)

                                            cTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGt                                  <  1:290444/62‑1 (MQ=255)

                                             tCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCcatcat                                                <  1:1587113/47‑1 (MQ=255)

                                             tCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCcatca                                                 >  1:1441675/1‑46 (MQ=255)

                                             tCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCcatca                                                 >  1:2345360/1‑46 (MQ=255)

                                              caaTCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCcatcat                                                >  1:3939105/3‑46 (MQ=255)

                                               gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACgg                      <  1:3446948/71‑1 (MQ=255)

                                               gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACg                       >  1:3195083/1‑70 (MQ=255)

                                               gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACg                       >  1:3189364/1‑70 (MQ=255)

                                               gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACg                       >  1:1757474/1‑70 (MQ=255)

                                               gATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACg                       <  1:1206485/70‑1 (MQ=255)

                                                aTCAGATCTTTGTAATCTGCGTAAGCCATGAAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGa                     <  1:1078116/71‑1 (MQ=255)

                                                aTCAAATCGTGGTAATCCGCATACGCCATGTAGAGTTCCATCATTGTGAACTCAGGATTATGGCGAACAGa                     <  1:3543291/71‑1 (MQ=255)

                                                 tCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaa                    <  1:666948/71‑1 (MQ=255)

                                                 tCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGa                     >  1:3618664/1‑70 (MQ=255)

                                                  cAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTGCATCATGGTGAACTCTGGGTTATGACGTACGGaa                    <  1:1139601/70‑1 (MQ=255)

                                                   aGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaaa                   >  1:1231389/1‑70 (MQ=255)

                                                     aTCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAAc                                         <  1:240769/46‑1 (MQ=255)

                                                     aTCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTggg                                   >  1:2315991/1‑52 (MQ=255)

                                                     aTCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTggg                                   >  1:1431123/1‑52 (MQ=255)

                                                     aTCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTg                                     <  1:1558585/50‑1 (MQ=255)

                                                     aTCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGt                                  <  1:623521/53‑1 (MQ=255)

                                                     aTCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGa                     <  1:2270945/66‑1 (MQ=255)

                                                       cTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGaaa                   >  1:3423575/1‑66 (MQ=255)

                                                        tttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGa                     <  1:2408485/63‑1 (MQ=255)

                                                        tttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCtt             >  1:1431638/1‑71 (MQ=255)

                                                        tttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCtt             >  1:1810435/1‑71 (MQ=255)

                                                         ttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTgg                                    >  1:2147321/1‑47 (MQ=255)

                                                         ttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTc            >  1:3648812/1‑71 (MQ=255)

                                                         ttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTc            >  1:3713919/1‑71 (MQ=255)

                                                         ttGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTc            >  1:3911701/1‑71 (MQ=255)

                                                          tGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCg           >  1:2566959/1‑71 (MQ=255)

                                                            tAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGtt         <  1:3654142/71‑1 (MQ=255)

                                                              aTCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTAc       >  1:1800792/1‑71 (MQ=255)

                                                               tCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGtt         <  1:1603635/68‑1 (MQ=255)

                                                                 tGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAAt                  >  1:2204062/1‑57 (MQ=255)

                                                                 tGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACgg     >  1:1432986/1‑70 (MQ=255)

                                                                   cGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACgg     <  1:3763661/68‑1 (MQ=255)

                                                                   cGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACgg     <  1:3747255/68‑1 (MQ=255)

                                                                   cGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGaa   <  1:2727350/70‑1 (MQ=255)

                                                                   cGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAg  <  1:1151388/71‑1 (MQ=255)

CCGAGAATATCCTGTGCCAGAGTACGGAACAGCGATTCGGTCAGCTCGATCAGATCTTTGTAATCTGCGTAAGCCATGTAGAGTTCCATCATGGTGAACTCTGGGTTATGACGTACGGAAATACCTTCGTTACGGAAG  >  minE/1933523‑1933660

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A