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
A1 F1 I2 R1	730	35.1	2107516	91.4%	1926269	80.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,626,245	T→C	T187A (ACC→GCC)	yhhJ ←	ABC transporter family protein YhhJ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,626,245	0	T	C	100.0%	164.3 / NA	47	T187A (ACC→GCC)	yhhJ	ABC transporter family protein YhhJ
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (29/18); total (29/18)

TCACCAGTAAGTGTTCCACCGTGCCGTGTTCACGCTCGCGGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGTAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTCGGGTTAAAGCGCATCCGGGTTTCC  >  NC_000913/3626167‑3626321

tCACCAGTAAGTGTTCCACCGTGCCGTGTTCACGCTCGCGGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCaa                                                                            <  2:703177/81‑1 (MQ=255)

  aCCAGTAAGTGTTCCACCGTGCCGTGTTCACGCTCGCGGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAAt                                                                           <  1:703178/80‑1 (MQ=255)

       tAAGTGTTCCACCGTGCCGTGTTCACGCTCGCGGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATgttgtt                                                                     <  1:703180/81‑1 (MQ=255)

       tAAGTGTTCCACCGTGCCGTGTTCACGCTCGCGGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATgttgtt                                                                     <  2:703179/81‑1 (MQ=255)

          gtgtTCCACCGTGCCGTGTTCACGCTGGCGGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTtgat                                                                  <  1:703181/81‑1 (MQ=255)

          gtgtTCCACCGTGCCGTGTTCACGCTCGCGGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTtgat                                                                  <  1:703182/81‑1 (MQ=255)

          gtgtTCCACCGTGCCGTGTTCACGCTCGCGGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTtgat                                                                  >  1:703234/1‑81 (MQ=255)

             ttCCACCGTGCCGTGTTCACGCTCGCGGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTgatgat                                                               <  2:703183/81‑1 (MQ=255)

               ccACCGTGCCGTGTTCACGCTCGCGGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCg                                                             >  2:703241/1‑81 (MQ=255)

               ccACCGTGCCGTGTTCACGCTCGCGGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCg                                                             >  2:703211/1‑81 (MQ=255)

                cACCGTGCCGTGTTCACGCTCGCGGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCg                                                             <  1:703184/80‑1 (MQ=255)

                cACCGTGCCGTGTTCACGCTCGCGGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGc                                                            >  2:703214/1‑81 (MQ=255)

                cACCGTGCCGTGTTCACGCTCGCGGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGc                                                            >  2:703218/1‑81 (MQ=255)

                 aCCGTGCCGTGTTCACGCTCGCGGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGc                                                            >  2:703212/1‑80 (MQ=255)

                            ttCACGCTCGCGGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGc                                                 >  1:703222/1‑80 (MQ=255)

                              cACGCTCGCGGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCa                                               <  1:703185/80‑1 (MQ=255)

                                 gCTCGCGGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAAc                                            >  1:703228/1‑80 (MQ=255)

                                    cgcgGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCAcg                                        >  2:703246/1‑81 (MQ=255)

                                    cgcgGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCAcg                                        >  1:703247/1‑81 (MQ=255)

                                       ggATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCgg                                     >  2:703245/1‑81 (MQ=255)

                                       ggATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCgg                                     >  1:703219/1‑81 (MQ=255)

                                       ggATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCgg                                     <  1:703186/81‑1 (MQ=255)

                                        gATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCgg                                     >  2:703260/1‑80 (MQ=255)

                                            aGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGagc                                 >  2:703248/1‑78 (MQ=255)

                                            aGCGCCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATc                                 >  1:703255/1‑80 (MQ=255)

                                              cgcCGATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAg                              >  1:703227/1‑81 (MQ=255)

                                                  gATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTc                          >  2:703268/1‑81 (MQ=255)

                                                  gATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTc                          >  2:703251/1‑81 (MQ=255)

                                                  gATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTc                          <  2:703188/81‑1 (MQ=255)

                                                  gATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTc                          >  1:703254/1‑81 (MQ=255)

                                                  gATCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTc                          <  1:703187/81‑1 (MQ=255)

                                                    tCCGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTCgg                        >  2:703238/1‑81 (MQ=255)

                                                     ccGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTCggg                       >  2:703226/1‑81 (MQ=255)

                                                      cGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTTGGGt                      >  1:703257/1‑81 (MQ=255)

                                                      cGGTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTCggg                       <  2:703189/80‑1 (MQ=255)

                                                       ggTCAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTCGGGt                      >  1:703230/1‑80 (MQ=255)

                                                         tCAATACAATCGCCAGCATGGCAATGATGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTCGGGTTaa                   <  2:703190/81‑1 (MQ=255)

                                                          cAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTCGGGTTa                    >  2:703264/1‑79 (MQ=255)

                                                          cAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTCGGGTTa                    >  2:703240/1‑79 (MQ=255)

                                                          cAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTCGGGTTa                    >  2:703243/1‑79 (MQ=255)

                                                          cAATACAATCGCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTCGGGTTa                    >  1:703235/1‑79 (MQ=255)

                                                                    gCCAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTCGGGTTAAAGCGCATCCgg        <  1:703191/81‑1 (MQ=255)

                                                                      cAGCATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTCGGGTTAAAGCGCATCCGGGt      >  2:703242/1‑81 (MQ=255)

                                                                         cATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTCGGGTTAAAGCGCATCCGGGTTTc   <  2:703192/81‑1 (MQ=255)

                                                                         cATGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTCGGGTTAAAGCGCATCCGGGTTTc   >  2:703233/1‑81 (MQ=255)

                                                                          aTGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTCGGGTTAAAGCGCATCCGGGTTTcc  <  2:703194/81‑1 (MQ=255)

                                                                          aTGGCAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTCGGGTTAAAGCGCATCCGGGTTTcc  <  1:703193/81‑1 (MQ=255)

TCACCAGTAAGTGTTCCACCGTGCCGTGTTCACGCTCGCGGATCAGCGCCGATCCGGTCAATACAATCGCCAGCATGGTAATGTTGTTGATGATCGCCATCACCCCGCCAAACCACGCGGGATCGAGGTTCGGGTTAAAGCGCATCCGGGTTTCC  >  NC_000913/3626167‑3626321

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A