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
A2 F1 I1 R1	748	32.0	1685426	92.6%	1560704	103.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,744,740	C→T	G428G (GGC→GGT)	mdtK →	multidrug efflux system transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,744,740	0	C	T	100.0%	65.3 / NA	22	G428G (GGC→GGT)	mdtK	multidrug efflux system transporter
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (12/10); total (12/10)

CCATTTTCTATATTACCTTTACGGCTTACTGGGTGCTGGGCTTGCCAAGCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGCCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCATCCCGCTAATAAAGACAAGGCGCAACCTTCACGGGTTGCGCCTGTATTTTTACG  >  NC_000913/1744613‑1744875

acaatttCTAGATTGCCTTTACGCCTGATTGGGTGCTGGGCTTGCCAAGCGGTTATATTCTGGCACTGACTGGTGTGGTTGTTGAACCTATCGGGCCAGCAGGCTTCTGGATAGGCTTTATTCTTGGTCTGACGTCGGc                                                                                                                              <  2:650104/135‑1 (MQ=255)

                                 tGCTGGGCTTGCCAAGCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGc                                                                                                                              <  2:791028/106‑1 (MQ=255)

                                 tGCTGGGCTTGCCAAGCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGc                                                                                                                              >  1:791028/1‑106 (MQ=255)

                                    tGGGCTTGCCAAGCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAg                                                                                                                            <  2:233495/105‑1 (MQ=255)

                                    tGGGCTTGCCAAGCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAg                                                                                                                            >  1:233495/1‑105 (MQ=255)

                                    tGGGCTTGCCAAGCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGCCATTATGATGATGt                                                                                                             >  1:649971/1‑120 (MQ=255)

                                    tGGGCTTGCCAAGCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGCCATTATGATGATGt                                                                                                             <  2:649971/120‑1 (MQ=255)

                                           gCCAAGCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTg                                                                                   >  1:583625/1‑139 (MQ=255)

                                                gCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACATCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTc                                                                              >  2:743468/1‑139 (MQ=255)

                                                 cGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATGGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCa                                                                             >  1:505066/1‑139 (MQ=255)

                                                                 cTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAAc                                                             >  2:202972/1‑139 (MQ=255)

                                                                   gACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGc                                                                                                                           <  2:351430/75‑1 (MQ=255)

                                                                   gACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGc                                                                                                                           >  1:351430/1‑75 (MQ=255)

                                                                       gATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTACTATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGcgt                                                       <  2:503931/139‑3 (MQ=255)

                                                                        aTCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATCATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGGCATCATTCTGCAACGAGCATc                                                      <  2:505066/139‑1 (MQ=255)

                                                                            ggTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCAt                                                       >  2:373926/1‑134 (MQ=255)

                                                                            ggTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCAt                                                       <  1:373926/134‑1 (MQ=255)

                                                                                              gCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCATCCCGCTAATAAAGACAAGGCGCa                                <  2:583625/139‑1 (MQ=255)

                                                                                                             gATAGGCTTTATTATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCATCCCGCTAATAAAGCCAAGGCGCAACCTTCACGGGTTgc                 >  1:468025/1‑139 (MQ=255)

                                                                                                                    tttATTATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGc                                                                                                    <  2:580057/49‑1 (MQ=255)

                                                                                                                    tttATTATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGc                                                                                                    >  1:580057/1‑49 (MQ=255)

                                                                                                                            tGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCATCCCGCTAATAAAGACAAGGCGCAACCTTCACGGGTTGCGCCTGTATTTTTACg  >  1:180354/1‑139 (MQ=255)

CCATTTTCTATATTACCTTTACGGCTTACTGGGTGCTGGGCTTGCCAAGCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGCCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCATCCCGCTAATAAAGACAAGGCGCAACCTTCACGGGTTGCGCCTGTATTTTTACG  >  NC_000913/1744613‑1744875

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A