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	836,074	C→G	20.5%	V264V (GTC→GTG)	narH →	nitrate reductase 1, beta (Fe‑S) subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	836,074	0	C	G	20.5%	151.2 / 31.1	73	V264V (GTC→GTG)	narH	nitrate reductase 1, beta (Fe‑S) subunit
Reads supporting (aligned to +/- strand): ref base C (29/29); new base G (7/8); total (36/37)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGAACGTGCAGCCAGCACC  >  minE/836007‑836140

agaAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTgtcggt                                                                 <  1:4389993/71‑1 (MQ=255)

agaAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTgtcgg                                                                  <  1:508103/70‑1 (MQ=255)

  aaatGCATCTTCTGTTACCCACGAATTGAGTCCGGTCAACCGACCGTGTGCTCAGAAACCTGCgtgggtc                                                                >  1:777092/4‑70 (MQ=255)

   aatGCATCTTCTGTTACCCACGAATTGAGTCCGGTCAACCGACCGTGTGCTCAGAAACCTGCgtgggtcgc                                                              <  1:1656730/69‑2 (MQ=255)

   aGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGGCGGTCGt                                                              <  1:523969/71‑1 (MQ=255)

    atGCATCTTCTGTTACCCACGAATTGAGTCCGGTCAACCGACCGTGTGCTCAGAAACCTGCgtgggtcgca                                                             >  1:3327909/2‑69 (MQ=255)

     tGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTAt                                                            <  1:401398/71‑1 (MQ=255)

        aTCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATcct                                                         <  1:5139350/71‑2 (MQ=255)

        aTCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCg                                                         <  1:4443711/71‑1 (MQ=255)

        aTCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCg                                                         <  1:1523005/71‑1 (MQ=255)

        aTCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAAACTGTGTCGGTCGTATCCg                                                         <  1:566046/71‑1 (MQ=255)

           ttctGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTa                                                      >  1:5082527/1‑71 (MQ=255)

            tctGTTACCCACGAATTGAGTCCGGTCAACCGACCGTGTGCTCAGAAACCTGCGTGGGTCGCATCCGGTAt                                                     >  1:3191624/1‑71 (MQ=255)

            tctGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTAt                                                     >  1:58117/1‑71 (MQ=255)

             ctGTTACCCACGAATTGAGTCCGGTCAACCGACCGTGTGCTCAGAAACCTGCgtgggtcgca                                                             <  1:2475869/62‑3 (MQ=255)

             ctGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGtt                                                       <  1:5263314/68‑1 (MQ=255)

             ctGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGtt                                                       <  1:675981/68‑1 (MQ=255)

             ctGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTa                                                      <  1:5161340/69‑1 (MQ=255)

                cTATCCGCGTATTTAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCt                                                   <  1:4448824/69‑1 (MQ=255)

                   tCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCtt                                                  <  1:2319512/67‑1 (MQ=255)

                   tCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCtt                                                  <  1:2269130/67‑1 (MQ=255)

                     cgcgTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGt                                             <  1:1879847/70‑1 (MQ=255)

                      gcgTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGc                                           >  1:2062906/1‑71 (MQ=255)

                       cgTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCt                                          >  1:208666/1‑71 (MQ=255)

                          aTTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCt                                          >  1:2992793/1‑68 (MQ=255)

                          aTTGAAGCGGGTCAGACGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCtgtt                                       >  1:2292953/1‑71 (MQ=255)

                           ttGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCtgttg                                      >  1:5677282/1‑71 (MQ=255)

                            tGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCtgttg                                      >  1:3838078/1‑70 (MQ=255)

                            tGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCtgttg                                      >  1:4447281/1‑70 (MQ=255)

                            tGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCtgttg                                      >  1:866778/1‑70 (MQ=255)

                            tGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCtgttg                                      >  1:3607389/1‑70 (MQ=255)

                            tGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCtgttg                                      <  1:2321273/70‑1 (MQ=255)

                             gAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGAGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTa                                    >  1:269440/1‑71 (MQ=255)

                              aaGCGTGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTa                                    <  1:3936445/70‑1 (MQ=255)

                               aGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACg                                  <  1:4309061/71‑1 (MQ=255)

                                tccggTCAACCGACCGTGTGCTCAGAAACCTGCGTGGGTCGCATCCGGTATCTGGGCGTGCt                                          <  1:1297308/59‑1 (MQ=255)

                                tccggTCAACCGACCGTGTGCTCAGAAACCTGCGTGGGTCGCATCCGGTATCTGGGCGTGCt                                          <  1:4354187/59‑1 (MQ=255)

                                tccggTCAACCGACCGTGTGCTCAGAAACCTGCGTGGGTCGCATCCGGTATCTGGGCGTGCTGCTTTACGa                                 >  1:276075/4‑71 (MQ=255)

                                gCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGa                                 >  1:4667558/1‑71 (MQ=255)

                                  cggTCAACCGACCGTGTGCTCAGAAACCTGCGTGGGTCGCATCCGGTATCTGGGCGTGCtgc                                        >  1:5670470/2‑61 (MQ=255)

                                  cggTCAACCGACCGTGTGCTCAGAAACCTGCGTGGGTCGCATCCGGTATCTGGGCGTGCtgc                                        >  1:3915422/2‑61 (MQ=255)

                                  cggTCAACCGACCGTGTGCTCAGAAACCTGCGTGGGTCGCATCCGGTATCTGGGCGTGCtgc                                        >  1:1297300/2‑61 (MQ=255)

                                  cggTCAACCGACCGTGTGCTCAGAAACCTGCGTGGGTCGCATCCGGTATCTGGGCGTGCTGCTTTACGac                                <  1:812112/69‑2 (MQ=255)

                                    gTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTAc                                   <  1:2662269/65‑1 (MQ=255)

                                     tCAACCGACCGTGTGCTCAGAAACCTGCGTGGGTCGCATCCGGTATCTGGGCGTGCTGCTTTACGACGCCg                            <  1:5551407/71‑1 (MQ=255)

                                     tCAACCGACCGTGTGCTCAGAAACCTGCATGGGTCGCATCCGGTATCTGGGCGTGCTGCTTTACGACGcc                             >  1:2781159/1‑70 (MQ=255)

                                      cAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGa                           >  1:1801949/1‑71 (MQ=255)

                                       aGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGc                                               <  1:2213539/50‑1 (MQ=255)

                                       aGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGc                                               <  1:3612705/50‑1 (MQ=255)

                                       aGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGAc                          >  1:4856313/1‑71 (MQ=255)

                                       aGCAGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGAc                          >  1:4834711/1‑71 (MQ=255)

                                        gCCGACCGTGTGATCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGcc                             <  1:1669589/67‑1 (MQ=255)

                                         ccGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTAc                                   <  1:1369153/60‑1 (MQ=255)

                                         ccGACCGTGTGCTCAGAAACCTGCGTGGGTCGCATCCGGTAt                                                     >  1:3189075/1‑42 (MQ=25)

                                          cGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGc                        <  1:3257921/70‑1 (MQ=255)

                                          cGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGc                        >  1:125299/1‑70 (MQ=255)

                                              cGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGa                                 >  1:1920537/1‑57 (MQ=255)

                                                 gtgCTCAGAAACCTGTGTCGGTCGTATCCGTTATCt                                                   <  1:2584512/36‑1 (MQ=255)

                                                 gtgCTCAGAAACCTGTGTCGGTCGTATCCGTTATCt                                                   <  1:5409495/36‑1 (MQ=255)

                                                 gtgCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGAAc                >  1:1712571/1‑71 (MQ=255)

                                                 gtgCTCAGAAACCTGCGTGGGTCGCATCCGGTATCTGGGCGTGCTGCTTTAc                                   <  1:1753677/52‑1 (MQ=255)

                                                 gtgCTCAGAAACCTGCGTGGGTCGCATCCGGTATCTGGGCGTGCTGCTTTAc                                   <  1:4624859/52‑1 (MQ=255)

                                                 gtgCTCAGAAACCTGCGTGGGTCGCATCCGGTATCTGGGCGTGCTGCTTTAc                                   <  1:1364331/52‑1 (MQ=255)

                                                  tgCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGa                                 >  1:5142558/1‑53 (MQ=255)

                                                  tgCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGa                                 >  1:1093989/1‑53 (MQ=255)

                                                  tgCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGa                                 >  1:1306591/1‑53 (MQ=255)

                                                  tgCTCAGAAACCTGCGTGGGTCGCATCCGGTATCTGGGCGTGCTGCTTTAc                                   <  1:1447620/51‑1 (MQ=255)

                                                    cTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGAACGTg             <  1:5285365/71‑1 (MQ=255)

                                                     tCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGt                                             <  1:100427/38‑1 (MQ=255)

                                                       aGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTa                                    >  1:5124531/1‑45 (MQ=255)

                                                       aGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGAACGTGc            <  1:447159/69‑1 (MQ=255)

                                                          aaCCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGAACGTGcagc         >  1:1542849/1‑69 (MQ=255)

                                                           aCCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGAACGTGcagccag      <  1:4551761/71‑1 (MQ=255)

                                                           aCCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGAACGTGcagccag      <  1:1057236/71‑1 (MQ=255)

                                                             cTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGCCGCTATTGAACGTGCAGCCAGCa    >  1:3687299/1‑71 (MQ=255)

                                                             cTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGAACGTGCAGCCAGCa    >  1:5308503/1‑71 (MQ=255)

                                                              tgtgTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGAACGTGCAGCCAGCAc   >  1:516212/1‑71 (MQ=255)

                                                               gtgtCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGAACGTGcagc         >  1:1822240/1‑64 (MQ=255)

                                                                tgtCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGAACGTGCAGCCAGCAcc  >  1:1109144/1‑70 (MQ=255)

AGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGCTCAGAAACCTGTGTCGGTCGTATCCGTTATCTTGGCGTGCTGTTGTACGATGCCGACGCTATTGAACGTGCAGCCAGCACC  >  minE/836007‑836140

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