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	1,933,189	A→G	12.0%	I418I (ATT→ATC)	lysS ←	lysine tRNA synthetase, constitutive

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,933,189	0	A	G	12.0%	216.7 / 18.7	83	I418I (ATT→ATC)	lysS	lysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand): ref base A (36/37); new base G (5/5); total (41/42)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.71e-01

AGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCT  >  minE/1933121‑1933258

aGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAAt                                                                     >  1:1174807/1‑71 (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)

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

          gcgcCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTc                                                            >  1:1515216/1‑70 (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                                                >  1:3499349/1‑71 (MQ=255)

                     tCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtgt                                                >  1:3914162/1‑71 (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                                         <  1:1689755/70‑1 (MQ=255)

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

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

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

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

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

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

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

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

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

                                aaGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGt                                     >  1:3550012/2‑71 (MQ=255)

                                 aGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGt                                     <  1:3040635/70‑1 (MQ=255)

                                  gCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTa                                   <  1:2474462/71‑1 (MQ=255)

                                  gCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTa                                   <  1:1854008/71‑1 (MQ=255)

                                   ttCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGtt                                    <  1:3888445/68‑1 (MQ=255)

                                   cTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtgtg                                               <  1:2049958/58‑1 (MQ=255)

                                   cTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtgtg                                               <  1:2149629/58‑1 (MQ=255)

                                    tCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAc                                 >  1:3572752/1‑71 (MQ=255)

                                    tCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTaa                                  >  1:488429/1‑70 (MQ=255)

                                     cGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGAt                                             >  1:229169/1‑58 (MQ=255)

                                     cGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAcg                                >  1:1839803/1‑71 (MQ=255)

                                      gCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAcg                                <  1:313528/70‑1 (MQ=255)

                                       cTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGt                                                    <  1:1599480/49‑1 (MQ=255)

                                       cTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAcgtc                              <  1:2897852/71‑1 (MQ=255)

                                        tAAAGCCGTTACCGATTTCACGACCACCAATgaag                                                                 <  1:829082/35‑1 (MQ=255)

                                        tAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAcgtcg                             >  1:1676638/1‑71 (MQ=255)

                                         aaaGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCt                                                  >  1:199218/1‑49 (MQ=255)

                                          aaGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAcgtcgt                            <  1:770120/70‑1 (MQ=255)

                                             ccattACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTacg                        >  1:3628617/4‑71 (MQ=255)

                                             ccGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTacg                        <  1:3698967/71‑1 (MQ=255)

                                               attACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTacgg                       >  1:3154713/2‑69 (MQ=255)

                                                  aCCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGa                                              >  1:2209484/1‑44 (MQ=255)

                                                  aCCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGa                                              >  1:1841800/1‑44 (MQ=255)

                                                  aCCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTacgac                      >  1:3619747/1‑68 (MQ=255)

                                                  aCCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGAcgc                    <  1:368352/70‑1 (MQ=255)

                                                    cGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAcg                                <  1:2706932/56‑1 (MQ=255)

                                                      aTTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAg               <  1:670838/71‑1 (MQ=255)

                                                      aTTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAg               >  1:3506037/1‑71 (MQ=255)

                                                      aTTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAg               >  1:788704/1‑71 (MQ=255)

                                                       tttCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGc              <  1:3943499/71‑1 (MQ=255)

                                                       tttCACGACCACCAATGAAGAACTCAAAGCGGTCtgtg                                               <  1:2355954/38‑1 (MQ=255)

                                                        ttCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACgcgc                  >  1:3070692/1‑66 (MQ=255)

                                                         tCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCg             <  1:1834786/70‑1 (MQ=255)

                                                         tCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCg             <  1:2078351/70‑1 (MQ=255)

                                                          cACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCgg            <  1:1340749/70‑1 (MQ=255)

                                                           aCGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTa                          >  1:2210341/1‑55 (MQ=255)

                                                           aCGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGga           <  1:2053879/70‑1 (MQ=255)

                                                             gACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGggga         >  1:3336015/1‑70 (MQ=255)

                                                             gACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCg             <  1:1943883/66‑1 (MQ=255)

                                                             gACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGgaga         <  1:2000826/70‑1 (MQ=255)

                                                             gACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGgaga         <  1:1762637/70‑1 (MQ=255)

                                                             gACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGgag          >  1:2691720/1‑69 (MQ=255)

                                                              accaccAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGaaa       <  1:489697/71‑1 (MQ=255)

                                                               ccaccgATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTaa                                  >  1:1583561/1‑43 (MQ=25)

                                                               ccaccaATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTac                         <  1:1077931/52‑1 (MQ=255)

                                                                caccaATGAAGAACTCAAAGCGGTCTGTGATTTCCg                                        <  1:3872940/36‑1 (MQ=255)

                                                                caccaATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAAc      <  1:2885904/70‑1 (MQ=255)

                                                                caccaATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACt     <  1:986997/71‑1 (MQ=255)

                                                                   caATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCt  <  1:1541563/71‑1 (MQ=255)

AGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCT  >  minE/1933121‑1933258

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