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 F1 I1 R1	765	39.6	1867486	94.4%	1762906	108.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,439,222	G→A	P300L (CCA→CTA)	yfcJ ←	putative arabinose efflux transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,439,222	0	G	A	100.0%	96.9 / NA	31	P300L (CCA→CTA)	yfcJ	putative arabinose efflux transporter
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (17/14); total (17/14)

CGGCGTAACCGCCCAGTGCGGTGCCGCGAACTTGTGAGGGGACGCGTTTAACCACCTCCACGCCCAGCGCAGGAAAGATAAGCGAACATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTGGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACTTTCACGCCGCCAAAACGGTCCGGCATCCAGCCAAACATGACGCGCATCACGACAAATGCGCCGCCAAACGCGGTA  >  NC_000913/2439088‑2439356

cggcgTAACCGCCCAGTGCGGTGCCGCGAACTTGTGAGGGGACGCGTTTAACCACCTCCACGCCCAGCGCAGGAAAGATAAGCGAACATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGc                                                                                                                                    >  1:790682/1‑139 (MQ=255)

                     tGCCGCGAACTTGTGAGGGGACGCGTTTAACCACCTCCACGCCCAGCGCAGGAAAGATAAGCGAACATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGcc                                                                                                               >  2:460096/1‑139 (MQ=255)

                     tGCCGCGAACTTGTGAGGGGACGCGTTTAACCACCTCCACGCCCAGCGCAGGAAAGATAAGCGAACATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAACAACAAGcc                                                                                                               >  1:54634/1‑139 (MQ=255)

                                 gtgAGGGGACGCGTTTAACCACCTCCACGCCCAGCGCAGGAAAGATAAGCGAACATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTAc                                                                                                   >  2:438246/1‑139 (MQ=255)

                                         aCGCGTTTAACCACCTCCACGCCCAGCGCAGGAAAGATAAGCGAACATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACa                                                                                                  >  1:313285/1‑132 (MQ=255)

                                         aCGCGTTTAACCACCTCCACGCCCAGCGCAGGAAAGATAAGCGAACATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACa                                                                                                  <  2:313285/132‑1 (MQ=255)

                                          cgcgTTTAACCACCTCCACGCCCAGCGCAGGAAAGATAAGCGAACATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCagaga                                                                                          >  1:159603/1‑139 (MQ=255)

                                              tttAACCACCTCCACGCCCAGCGCAGGAAAGATAAGCGAACATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACa                                                                                      <  2:159603/139‑1 (MQ=255)

                                                       cTCCACGCCCAGCGCAGGAAAGATAAGCGAACATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACt                                                                             >  1:356579/1‑139 (MQ=255)

                                                            cGCCCAGCGCAGGAAAGATAAGCGAACATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACTTTCAc                                                                        <  1:320934/139‑1 (MQ=255)

                                                                 aGCGCAGGAAAGATAAGCGAACATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGGGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACTTTCAcgccgc                                                                   >  2:552422/1‑139 (MQ=255)

                                                                 aGCGCAGGAAAGATAAGCGAACATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACTTTCAcgccgc                                                                   >  1:426177/1‑139 (MQ=255)

                                                                   cgcAGGAAAGATAAGCGAACATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCg                                                                                                          >  1:350536/1‑98 (MQ=255)

                                                                   cgcAGGAAAGATAAGCGAACATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCg                                                                                                          <  2:350536/98‑1 (MQ=255)

                                                                       ggAAAGATAAGCGAACATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCAc                                                                                                            >  1:679038/1‑92 (MQ=255)

                                                                       ggAAAGATAAGCGAACATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCAc                                                                                                            <  2:679038/92‑1 (MQ=255)

                                                                         aaaGATAAGCGAACATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACTTTCACGCCGCCAAAACgg                                                           >  1:859190/1‑139 (MQ=255)

                                                                                    aaCATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTAc                                                                                                   <  2:627830/88‑1 (MQ=255)

                                                                                    aaCATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTAc                                                                                                   >  1:627830/1‑88 (MQ=255)

                                                                                       aTCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACTTTCACGCCGCCAAAAc                                                             <  1:752802/123‑1 (MQ=255)

                                                                                       aTCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACTTTCACGCCGCCAAAAc                                                             >  2:752802/1‑123 (MQ=255)

                                                                                                 ggTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTaggg                                                                                                                                     <  1:430090/41‑1 (MQ=255)

                                                                                                 ggTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTaggg                                                                                                                                     >  2:430090/1‑41 (MQ=255)

                                                                                                 ggTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACTTTCACGCCGCCAAAACGGTCCGGCATCCAGCCAAACATGAcg                                   <  1:272651/139‑1 (MQ=255)

                                                                                                 ggTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACTTTCACGCCGCCAAAACGGTCCGGCATCCAGCCAAACATGAcg                                   <  1:460096/139‑1 (MQ=255)

                                                                                                    tAACGCCGCGCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACTTTCACGCCGCCAAAACGGTCCGGCATCCAGCCAAACATGACgcgc                                <  1:438246/139‑1 (MQ=255)

                                                                                                          cgcgCCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACTTTCACGCCGCCAAAACGGTCCGGCATCCAGCCAAACATGACGCGCATCACg                          >  1:605720/1‑139 (MQ=255)

                                                                                                            cgcCCGCTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACTTTCACGCCGCCAAAACGGTCCGGCATCCAGCCAAACATGACGCGCATCACGAc                        >  1:834932/1‑139 (MQ=255)

                                                                                                            cgcCCACTAATGCGACCCATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACTTTCACGCCGCCAAAACGGTCCGGCATCCAGCCAAACATGACGCGCATCACGAc                        >  2:703262/1‑139 (MQ=255)

                                                                                                                 gCTAATGCGACCCGTGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACTTTCACGCCGCCAAAACGGTCCGGCATCCAGCCAAACATGACGCGCATCACGACAAATg                   <  2:893105/139‑1 (MQ=255)

                                                                                                                             cATGCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACTTTCACGCCGCCAAAACGGTCCGGCATCCAGCCAAACATGACGCGCATCACGACAAATGCGCCGCCAAAcg       <  1:703262/139‑1 (MQ=255)

                                                                                                                              aTGCACCTAGGGCTTGCCAGAGCAACAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACTTTCACGCCGCCAAAACGGTCCGGCATCCAGCCAAACATGACGCGCATCACGACAAATGCGCCGCCAAAcgc      <  2:54634/139‑1 (MQ=255)

                                                                                                                                gCACCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACTTTCACGCCGCCAAAACGGTCCGGCGTCCAGCCAAACATGACGCGCATCACGACAAATGCGCCGCCAAACGCgg    <  1:552422/139‑1 (MQ=255)

                                                                                                                                  aCCTAGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACTTTCACGCCGCCAAAACGGTCCGGCATCCAGCCAAACATGACGCGCATCACGACAAATGCGCCGCCAAACGCGGTa  <  2:99445/139‑1 (MQ=255)

CGGCGTAACCGCCCAGTGCGGTGCCGCGAACTTGTGAGGGGACGCGTTTAACCACCTCCACGCCCAGCGCAGGAAAGATAAGCGAACATCCGGCTCCGGTTAACGCCGCGCCCGCTAATGCGACCCATGCACCTGGGGCTTGCCAGAGCAGCAACAAGCCCACCGTTTCTACAAGCAGAGAGACAATCGCCACTTTCACGCCGCCAAAACGGTCCGGCATCCAGCCAAACATGACGCGCATCACGACAAATGCGCCGCCAAACGCGGTA  >  NC_000913/2439088‑2439356

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A