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 R2	370	72.1	3738297	91.5%	3420541	62.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	2,970,436	C→T	5.2%	215 (TGA→TAA)	ytjB ←	conserved hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	2,970,436	0	C	T	5.2%	254.6 / 2.9	77	215 (TGA→TAA)	ytjB	conserved hypothetical protein
Reads supporting (aligned to +/- strand): ref base C (35/38); new base T (2/2); total (37/40)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.13e-01

GGGTCGTAAGAGTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAGGGCGATTGCT  >  minE/2970367‑2970505

gggTCGTAAGAGTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCa                                                                      >  1:3543162/1‑71 (MQ=255)

  gTCGTAAGAGTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCAct                                                                    <  1:523620/71‑1 (MQ=255)

     gTAAGAGTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCtt                                                                 >  1:3379224/1‑71 (MQ=255)

     gTAAGAGTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCtt                                                                 >  1:3389937/1‑71 (MQ=255)

     gTAAGAGTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCtt                                                                 <  1:1270281/71‑1 (MQ=255)

      tAAGAGTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCttt                                                                <  1:2872381/71‑1 (MQ=255)

        agagTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCttttt                                                              >  1:3246364/1‑71 (MQ=255)

        agagTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCttttt                                                              <  1:432592/71‑1 (MQ=255)

        agagTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCtttt                                                               <  1:2111179/70‑1 (MQ=255)

        agagTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCtttt                                                               <  1:369806/70‑1 (MQ=255)

        agagTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGAAATGGGTCACTCttttt                                                              >  1:3693587/1‑71 (MQ=255)

         gagTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCtttttt                                                             <  1:3376870/71‑1 (MQ=255)

         gagTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCtttttt                                                             <  1:2173011/71‑1 (MQ=255)

          agTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTtc                                                            <  1:2353343/71‑1 (MQ=255)

            tCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTtctc                                                          >  1:718214/1‑71 (MQ=255)

             cAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCg                                                         >  1:1785217/1‑71 (MQ=255)

                      gCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTttcttc                                                 <  1:2905368/70‑1 (MQ=255)

                      gCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTtcttcc                                                >  1:1113983/1‑71 (MQ=255)

                      gCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTtcttcc                                                >  1:2156747/1‑71 (MQ=255)

                        aGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTTACTCTTTTTTCTCGCTTtcttcctc                                              >  1:18539/1‑71 (MQ=255)

                        aGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCttttt                                                              <  1:1431815/55‑1 (MQ=255)

                        aGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCttttt                                                              <  1:1056992/55‑1 (MQ=255)

                          gCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTtcttcctctt                                            >  1:2242470/1‑71 (MQ=255)

                          gCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTtcttcctctt                                            >  1:2101099/1‑71 (MQ=255)

                           cGTTATGTCCACATTACGATTTCCTTTCTTGTAGTAATGGGTCActct                                                                  >  1:1283030/1‑48 (MQ=25)

                            gTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCtttt                                                               <  1:1874504/50‑1 (MQ=255)

                            gTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCtttt                                                               <  1:3677738/50‑1 (MQ=255)

                            gTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTtcttcctcttcc                                          <  1:1500661/71‑1 (MQ=255)

                            gTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTtcttcctcttcc                                          <  1:3546648/71‑1 (MQ=255)

                            gTAATGTGGACATAACGATCTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTtcttcctcttcc                                          <  1:1084611/71‑1 (MQ=255)

                               aTGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCa                                                                      >  1:833348/1‑40 (MQ=255)

                               aTGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCa                                                                      >  1:451570/1‑40 (MQ=255)

                               aTGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCa                                                                      >  1:1742688/1‑40 (MQ=255)

                               aTGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCgg                                        <  1:1562322/70‑1 (MQ=255)

                                tgtgGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCtttt                                                               <  1:1273267/46‑1 (MQ=255)

                                tgtgGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCtttt                                                               <  1:2551457/46‑1 (MQ=255)

                                   ggACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCg                                   >  1:2603381/1‑71 (MQ=255)

                                    gACATAACGATTTCCTTTCTTGTAGTAATGGGTTACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCg                                   <  1:2276969/70‑1 (MQ=255)

                                    gACATAACGATTTCCTTTCTTGTAGTAATGGGTTACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCg                                   <  1:1275819/70‑1 (MQ=255)

                                     aCATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGt                                 >  1:2031376/1‑71 (MQ=255)

                                      cATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGtt                                >  1:2077889/1‑71 (MQ=255)

                                      cATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCGTTTTtc                                                            <  1:7697/43‑1 (MQ=255)

                                       aTAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGttt                               >  1:3466343/1‑71 (MQ=255)

                                       aTAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGttt                               >  1:938925/1‑71 (MQ=255)

                                         aaCGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTtcttcctct                                             >  1:2692687/1‑55 (MQ=255)

                                          aCGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCgg                                        >  1:835932/1‑59 (MQ=255)

                                          aCGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCgg                                        >  1:606271/1‑59 (MQ=255)

                                          aCGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTg                              <  1:3395137/69‑1 (MQ=255)

                                           cGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTg                           <  1:17598/71‑1 (MQ=255)

                                            gATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTttct                                                   <  1:3131190/46‑1 (MQ=255)

                                             aTTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGc                         <  1:1948020/71‑1 (MQ=255)

                                              tttCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTgg                          >  1:248449/1‑69 (MQ=255)

                                               ttCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCtt                                                      >  1:3409091/1‑40 (MQ=255)

                                               ttCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCtt                                                      >  1:1029020/1‑40 (MQ=255)

                                               ttCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCtt                                                      >  1:3061958/1‑40 (MQ=255)

                                               ttCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCtt                                                      >  1:1641694/1‑40 (MQ=255)

                                                  cTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTa                    <  1:3042172/71‑1 (MQ=255)

                                                  cTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTa                    <  1:215353/71‑1 (MQ=255)

                                                    ttCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTttct                                                   >  1:1015101/1‑38 (MQ=255)

                                                    ttCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTaa                   >  1:614100/1‑70 (MQ=255)

                                                    ttCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTACGGCACCGGTTTGCTGGCGGTTaa                   >  1:1415023/1‑70 (MQ=255)

                                                     tCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTg                           <  1:2939323/61‑1 (MQ=255)

                                                     tCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTaa                   <  1:2293234/69‑1 (MQ=255)

                                                      cTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACa                 <  1:1978810/70‑1 (MQ=255)

                                                        tGTAGTAATGGGTTACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAgg               >  1:403746/1‑70 (MQ=255)

                                                         gtagtaATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAgg               >  1:1433659/1‑69 (MQ=255)

                                                          tagtaATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAg            <  1:320535/71‑1 (MQ=255)

                                                          tagtaATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAg            <  1:2123921/71‑1 (MQ=255)

                                                            gtaATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTaa                   <  1:3196268/62‑1 (MQ=255)

                                                             taATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAGGGc         >  1:497239/1‑71 (MQ=255)

                                                               aTGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAGGGCg        <  1:939157/70‑1 (MQ=255)

                                                               aTGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAGGGCg        <  1:1212450/70‑1 (MQ=255)

                                                               aTGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAGGGCGa       >  1:176739/1‑71 (MQ=255)

                                                                tGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAGGGCGAt      <  1:3239101/71‑1 (MQ=255)

                                                                    tCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAAc                  >  1:3269823/1‑55 (MQ=255)

                                                                    tCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAGGGCGATtgct  <  1:2959337/71‑1 (MQ=255)

                                                                    tCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAGGGCGATtgct  <  1:2596806/71‑1 (MQ=255)

GGGTCGTAAGAGTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAGGGCGATTGCT  >  minE/2970367‑2970505

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