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 I2 R1	764	42.0	2018750	95.5%	1927906	109.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,504,391	T→C	E32G (GAA→GGA)	fryA ←	putative PTS enzyme: Hpr, enzyme I and IIA components

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,504,391	0	T	C	100.0%	165.8 / NA	47	E32G (GAA→GGA)	fryA	putative PTS enzyme: Hpr, enzyme I and IIA components
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (25/22); total (25/22)

CGCCGCGCCTGCTCTTCATCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTTCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCGGGTTAATCAGGAGATCATCTGAAATCCGTC  >  NC_000913/2504256‑2504525

cgccgcgccTGCTCTTCATCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGc                                                                                                                                     >  2:295082/1‑139 (MQ=255)

                     cTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTg                                                                                                                       >  1:846086/1‑132 (MQ=255)

                     cTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTg                                                                                                                       <  2:846086/132‑1 (MQ=255)

                     cTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTg                                                                                                                       >  1:627589/1‑132 (MQ=255)

                     cTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTg                                                                                                                       <  2:627589/132‑1 (MQ=255)

                                        tGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCgg                                                                                             >  2:814437/1‑139 (MQ=255)

                                                   ttAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTa                                                                                  <  1:340410/139‑1 (MQ=255)

                                                   ttAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTa                                                                                  <  2:326955/139‑1 (MQ=255)

                                                     aaaTAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGa                                                                                <  2:920584/139‑1 (MQ=255)

                                                          gggTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGcc                                                                                                                               <  1:17064/87‑1 (MQ=255)

                                                          gggTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGcc                                                                                                                               >  2:17064/1‑87 (MQ=255)

                                                          gggTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGtt                                                                           >  1:102160/1‑139 (MQ=255)

                                                          gggTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGtt                                                                           >  2:458423/1‑139 (MQ=255)

                                                          gggTACAGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTTCCTTTGCGTTCTGGCGATGGCTGATAAAAATGATTCCACTTTGCCACCGACGGCACTGTTCTTTAAGATCCCACGCCGGACGAGAACATAGACCGtt                                                                           >  1:572460/1‑139 (MQ=255)

                                                           ggtgccggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGcc                                                                                                                               <  2:353463/86‑1 (MQ=255)

                                                           ggtgccggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGcc                                                                                                                               >  1:353463/1‑86 (MQ=255)

                                                              gtcggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGc                                                                       >  2:75470/3‑139 (MQ=255)

                                                              gccggttccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATATAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTGAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGc                                                                       >  1:76418/1‑139 (MQ=255)

                                                              gccggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGc                                                                       <  1:814437/139‑1 (MQ=255)

                                                               ccggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCa                                                                      <  1:458423/139‑1 (MQ=255)

                                                                cggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCaa                                                                     >  1:133096/1‑139 (MQ=255)

                                                                cggtgccAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCaa                                                                     >  1:58574/1‑139 (MQ=255)

                                                                       aaTCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACg                                                                                          <  2:609367/111‑1 (MQ=255)

                                                                       aaTCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACg                                                                                          >  1:609367/1‑111 (MQ=255)

                                                                         tCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCg                                                                             >  1:753541/1‑122 (MQ=255)

                                                                         tCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCg                                                                             <  2:753541/122‑1 (MQ=255)

                                                                                       cTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTa                                              >  2:899989/1‑139 (MQ=255)

                                                                                        ttttCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTaa                                             <  2:102160/139‑1 (MQ=255)

                                                                                                  tGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCg                                                                             <  1:515553/97‑1 (MQ=255)

                                                                                                  tGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCg                                                                             >  2:515553/1‑97 (MQ=255)

                                                                                                    ccTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTcc                                 >  1:621224/1‑139 (MQ=255)

                                                                                                       ttGCGTTCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCTCTGTTCTTTATGTTCCCGCGCCGGACGAGGATGTAGTCCGTTAGGCAAAGGACAGTGAAATTGAATCGTTACCATAACCGATCCggg                              <  2:76418/139‑1 (MQ=255)

                                                                                                            ttCTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCGGGTTAAt                         <  1:899989/139‑1 (MQ=255)

                                                                                                              cTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTgg                                                                                                                          >  1:449631/1‑40 (MQ=255)

                                                                                                              cTGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTgg                                                                                                                          <  2:449631/40‑1 (MQ=255)

                                                                                                               tGGCGATGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCGGGTTAATCAg                      <  1:75470/139‑1 (MQ=255)

                                                                                                                    aTGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACa                                           <  2:594475/113‑1 (MQ=255)

                                                                                                                    aTGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACa                                           >  1:594475/1‑113 (MQ=255)

                                                                                                                     tGGTTAATAAAAGTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCGGGTTAATCAGGAGatc                >  1:947630/1‑139 (MQ=255)

                                                                                                                                 gTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGa                                                                                            >  1:315079/1‑51 (MQ=255)

                                                                                                                                 gTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGa                                                                                            <  2:315079/51‑1 (MQ=255)

                                                                                                                                 gTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGtt                                                                           <  2:35157/68‑1 (MQ=255)

                                                                                                                                 gTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGtt                                                                           >  1:35157/1‑68 (MQ=255)

                                                                                                                                 gTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCt                                   <  1:197697/108‑1 (MQ=255)

                                                                                                                                 gTGATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCt                                   >  2:197697/1‑108 (MQ=255)

                                                                                                                                 gTGATTCCGCTTTGCCAATGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGAAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCGCGTTAATCAGGAGATCATCTGAAATCCg    >  1:578320/1‑139 (MQ=255)

                                                                                                                                   gATTCCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCGGGTTAATCAGGAGATCATCTGAAATCCGTc  <  2:621224/139‑1 (MQ=255)

CGCCGCGCCTGCTCTTCATCGCTGCCGCTAATGTTCAGGCTGCAACTGTCATTAAATAGGGTGCCGGTGCCAATCAGCGCCAGCGAGCTTTTCGCATCTGCCTTTGCGTTCTGGCGATGGTTAATAAAAGTGATTTCGCTTTGCCACTGGCTGCACTGTTCTTTAAGTTCCCACGCCGGACGAGCATGTAGACCGTTAGGCAAAGGACAGAGAAATTGAATCGTTAACATAACCGCTCCGGGTTAATCAGGAGATCATCTGAAATCCGTC  >  NC_000913/2504256‑2504525

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A