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	1,934,206	A→G	35.4%	I79I (ATT→ATC)	lysS ←	lysine tRNA synthetase, constitutive

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,934,206	0	A	G	35.4%	73.9 / 73.6	82	I79I (ATT→ATC)	lysS	lysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand): ref base A (33/20); new base G (18/11); total (51/31)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.76e-01

TCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTT  >  minE/1934138‑1934276

tCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCataat                                                                      <  1:4953092/71‑1 (MQ=255)

  aCGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATac                                                                    >  1:5635555/1‑71 (MQ=255)

  aCGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATac                                                                    >  1:2305793/1‑71 (MQ=255)

  aCGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATac                                                                    >  1:4089260/1‑71 (MQ=255)

  aCGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATac                                                                    >  1:3670634/1‑71 (MQ=255)

  aCGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATac                                                                    >  1:5192515/1‑71 (MQ=255)

  aCGGGCAACGTACAGATGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCataa                                                                       >  1:2103692/1‑68 (MQ=255)

   cttgCAACGTACAGTTGAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATac                                                                    >  1:4010170/4‑70 (MQ=255)

   cGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATac                                                                    >  1:5431537/1‑70 (MQ=255)

    ttgCAACGTACAGTTGAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATacga                                                                  >  1:1882957/3‑71 (MQ=255)

    gggCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATacga                                                                  <  1:4257391/71‑1 (MQ=255)

      gCAACGTACAGTTGAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATacga                                                                  >  1:97317/1‑69 (MQ=255)

       cAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACgg                                                               >  1:1178934/1‑71 (MQ=255)

         aCGTACAGTTGAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGt                                                             >  1:1821742/1‑71 (MQ=255)

         aCGTACAGTTGAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGt                                                             >  1:3189115/1‑71 (MQ=255)

         aCGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGt                                                             <  1:1442921/71‑1 (MQ=255)

          cGTACAGTTGAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGt                                                             >  1:2923742/1‑70 (MQ=255)

           gTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGtca                                                           <  1:2699140/71‑1 (MQ=255)

            tACAGTTGAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGtcat                                                          <  1:459105/71‑1 (MQ=255)

            tACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGtcat                                                          <  1:192176/71‑1 (MQ=255)

            tACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGtcat                                                          >  1:2695632/1‑71 (MQ=255)

             aCAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATacg                                                                   >  1:1351298/1‑61 (MQ=255)

              cAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGtcatca                                                        >  1:2369524/1‑71 (MQ=255)

              cAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGtcatca                                                        >  1:2739834/1‑71 (MQ=255)

              cAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGtcatc                                                         <  1:5568952/70‑1 (MQ=255)

               aGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTcatcat                                                       <  1:4756993/71‑1 (MQ=255)

                  tGAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCg                                                    >  1:65613/1‑71 (MQ=255)

                   gAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCgg                                                   >  1:2287907/1‑71 (MQ=255)

                   gAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCgg                                                   >  1:2526588/1‑71 (MQ=255)

                   gAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCg                                                    >  1:1549295/1‑70 (MQ=255)

                   gAATACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCg                                                    <  1:3245899/70‑1 (MQ=255)

                    aaTACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCgg                                                   <  1:4012404/70‑1 (MQ=255)

                    aaTACGGCCACCGACATCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCg                                                    <  1:4738092/69‑1 (MQ=255)

                      tGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCataa                                                                       <  1:5474961/48‑1 (MQ=255)

                      tGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCataa                                                                       <  1:2251878/48‑1 (MQ=255)

                      tGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATacgacg                                                                >  1:5491071/1‑55 (MQ=255)

                      tGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATacgacg                                                                >  1:3691850/1‑55 (MQ=255)

                      tGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATacgac                                                                 <  1:63102/54‑1 (MQ=255)

                      tGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATacgac                                                                 <  1:759894/54‑1 (MQ=255)

                        cGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAg                                               >  1:1058439/1‑70 (MQ=255)

                        cGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAg                                               >  1:4926516/1‑70 (MQ=255)

                        cGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAg                                               >  1:3759086/1‑70 (MQ=255)

                             gCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCaa                                            >  1:4279799/1‑68 (MQ=255)

                             gCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCaa                                            >  1:932022/1‑68 (MQ=255)

                             gCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCaa                                            >  1:5591560/1‑68 (MQ=255)

                              ccAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCataa                                                                       >  1:3067599/1‑40 (MQ=255)

                              ccAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACgg                                         >  1:1209557/1‑70 (MQ=255)

                              ccAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGc                                        <  1:587097/71‑1 (MQ=255)

                                aaCGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGc                                              <  1:3508765/63‑1 (MQ=255)

                                  cGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACg                                          >  1:5169788/1‑65 (MQ=255)

                                  cGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACg                                          >  1:5157556/1‑65 (MQ=255)

                                   atCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCGGCCAGCAAcc                                          <  1:4339776/63‑2 (MQ=255)

                                   atCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCGGCCAGCAAcc                                          <  1:5623845/63‑2 (MQ=255)

                                   atCCTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCGGCCAGCAAcc                                          <  1:234300/63‑2 (MQ=255)

                                     ccTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCGGCCAGCAAcc                                          <  1:3715333/62‑2 (MQ=255)

                                      cTGCAACGTTACAAAGGAGGCTTTCCCCATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTca                                 <  1:3961549/70‑2 (MQ=255)

                                       tGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGa                                >  1:5539454/1‑70 (MQ=255)

                                           gggTAACGAAAGACGCTTTACCCATAATACGACGGGtcat                                                          <  1:5414647/40‑1 (MQ=255)

                                            ggTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCa                          <  1:5377813/71‑1 (MQ=255)

                                              tAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGc                                              >  1:5176971/1‑49 (MQ=255)

                                              tAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGc                                              >  1:4153184/1‑49 (MQ=255)

                                               aaCGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAgcg                       >  1:4978297/1‑71 (MQ=255)

                                                 cGAAAGACGCTTTACCCATAATACGACGGGTCATCATGc                                                     >  1:3304856/1‑39 (MQ=255)

                                                 cGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCaa                                            >  1:810261/1‑48 (MQ=255)

                                                 cGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCaa                                            >  1:1099062/1‑48 (MQ=255)

                                                  gAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCt                     >  1:2343918/1‑70 (MQ=255)

                                                   aaaGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTc                   >  1:3316697/1‑71 (MQ=255)

                                                    aaGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTcc                  <  1:2878285/71‑1 (MQ=255)

                                                       aggCTTTCCCCATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGTTTAAGGATTCCAGt               <  1:4023622/69‑1 (MQ=255)

                                                        ggCTTTCCCCATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGTTTAAGGATTCCAGtt              >  1:4066856/2‑71 (MQ=255)

                                                         gCTTTCCCCATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGttt                           <  1:2252670/57‑2 (MQ=255)

                                                         gCTTTCCCCATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGTTTAAGGATTCCAGttc             >  1:2613270/1‑71 (MQ=255)

                                                           tttCCCCATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGTTTAAGGATTCCAGttcct           >  1:3144320/1‑69 (MQ=255)

                                                           tttACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGtt                            <  1:1295208/54‑1 (MQ=255)

                                                             tACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGttcttc          <  1:2759822/70‑1 (MQ=255)

                                                              aCCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCg         <  1:776813/70‑1 (MQ=255)

                                                               cccATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGttta                          >  1:5115961/1‑50 (MQ=255)

                                                               cccATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGttta                          >  1:3147290/1‑50 (MQ=255)

                                                               cccATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGttta                          >  1:3140687/1‑50 (MQ=255)

                                                               cccATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGtt       <  1:4873818/71‑1 (MQ=255)

                                                                ccATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGttt                           >  1:4348514/1‑49 (MQ=255)

                                                                ccATGATACGACGGGTCATCATTCGGCCAGCAACCGAGACTTCAATGttt                           >  1:4023336/1‑49 (MQ=255)

                                                                ccATAATACGACGGGTCATCATGCGGCCAGCAACGGCGa                                      >  1:3181525/1‑39 (MQ=255)

                                                                 cATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGt                             <  1:903255/47‑1 (MQ=255)

                                                                 cATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCtt                    >  1:4280273/1‑56 (MQ=255)

                                                                 cATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTtct     <  1:321230/71‑1 (MQ=255)

                                                                 cATAATACGACGGGTCATCATGCGGCCAGCAACCGCGACTTCGATGt                             <  1:4577549/47‑1 (MQ=255)

                                                                   taataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTc                   <  1:2739660/55‑1 (MQ=255)

                                                                   taataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTc                   <  1:2634463/55‑1 (MQ=255)

                                                                   taataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTc                   <  1:2608632/55‑1 (MQ=255)

                                                                   taataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGtt       <  1:1588650/67‑1 (MQ=255)

                                                                   taataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTctct   >  1:2161738/1‑71 (MQ=255)

                                                                    aataCGACGGGTCATCATGCGGCCAGCAACGGCGa                                      >  1:699434/1‑35 (MQ=255)

                                                                    aataCGACGGGTCATCATGCGGCCAGCAACGGCGa                                      >  1:2969353/1‑35 (MQ=255)

                                                                    aataCGACGGGTCATCATGCGGCCAGCAACGGCGa                                      >  1:5406354/1‑35 (MQ=255)

                                                                    aataCGACGGGTCATCATGCGGCCAGCAACGGCGa                                      >  1:2908312/1‑35 (MQ=255)

                                                                    aataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCtt  >  1:740975/1‑71 (MQ=255)

                                                                    aataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCtt  >  1:386593/1‑71 (MQ=255)

                                                                    aataCGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCtt  >  1:949985/1‑71 (MQ=255)

TCACGGGCAACGTACAGCTGAATGCGACCGCCAACGTCCTGCAGGGTAACGAAAGACGCTTTACCCATAATACGACGGGTCATCATGCGGCCAGCAACGGCGACTTCGATGTTCAGCGCTTCCAGTTCTTCGTTCTCTT  >  minE/1934138‑1934276

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