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
A4 F28 I1 R1	164	66.7	2276140	99.1%	2255654	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,843,829	G→A	intergenic (+115/+2)	gdhA → / ← ynjI	glutamate dehydrogenase/DUF1266 domain‑containing protein YnjI

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,843,829	0	G	A	100.0%	182.3 / NA	52	intergenic (+115/+2)	gdhA/ynjI	glutamate dehydrogenase/DUF1266 domain‑containing protein YnjI
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (21/31); total (21/31)

TGGCGCAGGGTGTGATTTAAGTTGTAAATGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCGTTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCATTTCTTACTGTAGTGCTCCCAAAACTGCTTGTCGTAACGATAACACGCTTCAAGTTCAG  >  NC_000913/1843695‑1843946

gggCGCAGGGTGTGATTTAAGTTGTAAAGGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGGTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTAt                                                                                                                  <  2:861376/139‑1 (MQ=255)

  gcgcAGGGTGTGATTTAAGTTGTAAATGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGa                                                                                                                <  2:76519/140‑1 (MQ=255)

   cgcAGGGTGTGATTTAAGTTGTAAATGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAg                                                                                                               >  1:855190/1‑140 (MQ=255)

        ggTGTGATTTAAGTTGTAAATGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTAttt                                                                                                          >  1:70801/1‑140 (MQ=255)

         gtgtGATTTAAGTTGTAAATGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTa                                                                                                         <  1:617038/140‑1 (MQ=255)

            tgATTTAAGTTGTAAATGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTAt                                                                                                                  >  2:9263/1‑128 (MQ=255)

            tgATTTAAGTTGTAAATGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTAt                                                                                                                  <  1:9263/128‑1 (MQ=255)

            tgATTTAAGTTGTAAATGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACg                                                                                                      >  2:469505/1‑140 (MQ=255)

            tgATTTAAGTTGTAAATGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACg                                                                                                      <  2:80645/140‑1 (MQ=255)

              aTTTAAGTTGTAAATGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGga                                                                                                    <  2:1029708/140‑1 (MQ=255)

                  aaGTTGTAAATGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAAc                                                                                                       >  2:721431/1‑133 (MQ=255)

                  aaGTTGTAAATGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAAc                                                                                                       <  1:721431/133‑1 (MQ=255)

                  aaGTTGTAAATGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGgatgat                                                                                                <  2:354992/140‑1 (MQ=255)

                  aaGTTGTAAATGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGgatgat                                                                                                >  1:910799/1‑140 (MQ=255)

                    gTTGTAAATGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGc                                                                                              >  2:330845/1‑140 (MQ=255)

                    gTTGTAAATGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGc                                                                                              >  2:826638/1‑140 (MQ=255)

                        tAAATGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGGAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTccc                                                                                          >  2:319107/1‑140 (MQ=255)

                          aaTGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCa                                                                                        <  2:1036707/140‑1 (MQ=255)

                          aaTGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCa                                                                                        <  1:211608/140‑1 (MQ=255)

                           aTGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCAc                                                                                       <  2:70801/140‑1 (MQ=255)

                            tGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACg                                                                                      <  1:1062318/140‑1 (MQ=255)

                            tGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACg                                                                                      <  2:910799/140‑1 (MQ=255)

                             gCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACgg                                                                                     >  2:109473/1‑140 (MQ=255)

                                  aTGGCGCTACGCTTATCAGGCCTACAAATGGGCATAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACAt                                                                                >  2:773438/1‑140 (MQ=255)

                                         tACGCTTATCAGGCCTACAAATGGGCATAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTAt                                                                         <  1:773438/140‑1 (MQ=255)

                                                aTCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCaa                                                                  <  1:290921/140‑1 (MQ=255)

                                                  cAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACg                                                                <  2:855190/140‑1 (MQ=255)

                                                    ggCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGc                                                              <  1:167217/140‑1 (MQ=255)

                                                     gCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCa                                                             <  1:896852/140‑1 (MQ=255)

                                                     gCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCa                                                             <  1:460389/140‑1 (MQ=255)

                                                      ccTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCAt                                                            <  2:1090251/140‑1 (MQ=255)

                                                       cTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGGAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCAtt                                                           <  1:319107/140‑1 (MQ=255)

                                                       cTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCAtt                                                           <  1:386519/140‑1 (MQ=255)

                                                       cTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCAtt                                                           <  1:469505/140‑1 (MQ=255)

                                                          cAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACTGATGATGCTCCCCACGGAACATTTCTTATCGGCCAACGGCATTTCt                                                        >  2:360010/1‑140 (MQ=255)

                                                          cAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCATTTCt                                                        >  2:860424/1‑140 (MQ=255)

                                                               gggCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGc                                                              <  2:284105/129‑1 (MQ=255)

                                                               gggCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGc                                                              >  1:284105/1‑129 (MQ=255)

                                                                ggCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCATTTCTTACTGt                                                  >  1:992204/1‑140 (MQ=255)

                                                                  cacaATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCATTTCTTACTGTAg                                                >  1:267464/1‑140 (MQ=255)

                                                                      aTTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCATTTCTTACTGTAGTGCt                                            <  2:1112414/140‑1 (MQ=255)

                                                                                 ttACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCATTTCTTACTGTAGTGCTCCCAAAACTGc                                 <  2:759128/140‑1 (MQ=255)

                                                                                  tACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCATTTCTTACTGTAGTGCTCCCAAAACTGCt                                <  1:860424/140‑1 (MQ=255)

                                                                                   aCGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCATTTCTTACTGTAGTGCTCCCAAAACTGCtt                               >  1:191684/1‑140 (MQ=255)

                                                                                      ctctAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCATTTCTTACTGTAGTGCTCCCAAAACTGCTTGTc                            >  1:100974/1‑140 (MQ=255)

                                                                                       tctAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCATTTCTTACTGTAGTGCTCCCAAAACTGCTTGTCg                           <  2:536187/140‑1 (MQ=255)

                                                                                                 gCCGGGCAAGCGCAGCGCTCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCATTTCTTACTGTAGTGCTCCCAAAACTGCTTGTCGTAACGATAac                 >  2:114254/1‑140 (MQ=255)

                                                                                                 gCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCATTTCTTACTGTAGTGCTCCCAAAACTGCTTGTCGTAACGATAac                 <  2:191684/140‑1 (MQ=255)

                                                                                                   cGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCATTTCTTACTGTAGTGCTCCCAAAACTGCTTGTCGTAACGATAacac               >  2:201912/1‑140 (MQ=255)

                                                                                                                cgcCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCATTTCTTACTGTAGTGCTCCCAAAACTGCTTGTCGTAACGATAACACGCTTCAAGTTCAg  <  1:201912/140‑1 (MQ=255)

                                                                                                                cgcCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCATTTCTTACTGTAGTGCTCCCAAAACTGCTTGTCGTAACGATAACACGCTTCAAGTTCAg  >  1:456270/1‑140 (MQ=255)

                                                                                                                cgcCCCCGGCAAAATTTCAGGCATTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCATTTCTTACTGTAGTGCTCCCAAAACTGCTTGTCGTAACGATAACACGCTTCAAGTTCAg  <  1:826638/140‑1 (MQ=255)

TGGCGCAGGGTGTGATTTAAGTTGTAAATGCCTGATGGCGCTACGCTTATCAGGCCTACAAATGGGCACAATTCATTGCAGTTACGCTCTAATGTAGGCCGGGCAAGCGCAGCGCCCCCGGCAAAATTTCAGGCGTTTATGAGTATTTAACGGATGATGCTCCCCACGGAACATTTCTTATGGGCCAACGGCATTTCTTACTGTAGTGCTCCCAAAACTGCTTGTCGTAACGATAACACGCTTCAAGTTCAG  >  NC_000913/1843695‑1843946

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A