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
A12 F1 I2 R1	766	55.6	2631458	94.7%	2491990	109.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,706,482	C→T	G215S (GGC→AGC)	lepA ←	back‑translocating elongation factor EF4, GTPase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,706,482	0	C	T	100.0%	141.2 / NA	44	G215S (GGC→AGC)	lepA	back‑translocating elongation factor EF4, GTPase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (23/21); total (23/21)

GAGCCAGCCTACTTCGCCACATTTCAGTTCAGTGCGGTCAACCTGTTTCGGCGTGAAGATGCCCAGACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCCGTTTTTAATACGGATAAGTGAAACAACGCCCAGGTAGTTGTCGAACCATGAGTCGATAATTAGTGCCTGCAACGGGCCTTCCGGATCGCCTTCCGGCGGCGGAATGTCGCGCACCAGACGTTCGAGAACGTCC  >  NC_000913/2706351‑2706615

gAGCCAGCCTACTTCGCCACATTTCAGTTCAGTGCGGTCAACCTGTTTCGGCGTGAAGATGCCCAGACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTa                                                                                                                                <  2:1159631/139‑1 (MQ=255)

  gccagccTACTTCGCCACATTTCAGTTCAGTGCGGTCAACCTGTTTCGGCGTGAAGATGCCCAGACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAAt                                                                                                                              >  1:138740/1‑139 (MQ=255)

              cGCCACATTTCAGTTCAGTGCGGTCAACCTGTTTCGGCGTGAAGATGCCCAGACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGa                                                                                                                  >  2:296227/1‑139 (MQ=255)

                 cacaTTTCAGTTCAGTGCGGTCAACCTGTTTCGGCGTGAAGATGCCCAGACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGtttt                                                                                                                                  >  1:1122806/1‑120 (MQ=255)

                 cacaTTTCAGTTCAGTGCGGTCAACCTGTTTCGGCGTGAAGATGCCCAGACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGtttt                                                                                                                                  <  2:1122806/120‑1 (MQ=255)

                 cacaTTTCAGTTCAGTGCGGTCAACCTGTTTCGGCGTGAAGATGCCCAGACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAaac                                                                                                               <  1:357591/139‑1 (MQ=255)

                   caTTTCAGTTCAGTGCGGTCAACCTGTTTCGGCGTGAAGATGCCCAGACGGTCGGCGTTATA‑GTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAaacaac                                                                                                            <  1:218094/139‑1 (MQ=255)

                          gttcagtGCGGTCAACCTGTTTCGGCGTGAAGATGCCCAGACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAAACAACGCCCAg                                                                                                      <  1:296227/139‑1 (MQ=255)

                                tGCGGTCAACCTGTTTCGGCGTGAAGATGCCCAGACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGAt                                                                                                                        >  2:434797/1‑115 (MQ=255)

                                tGCGGTCAACCTGTTTCGGCGTGAAGATGCCCAGACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGAt                                                                                                                        <  1:434797/115‑1 (MQ=255)

                                tGCGGTCAACCTGTTTCGGCGTGAAGATGCCCAGACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAaacaa                                                                                                             >  2:444309/1‑126 (MQ=255)

                                tGCGGTCAACCTGTTTCGGCGTGAAGATGCCCAGACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAaacaa                                                                                                             <  1:444309/126‑1 (MQ=255)

                                tGCGGTCAACCTGTTTCGGCGTGAAGATGCCCAGACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAAACAACGCCCAGGTAGtt                                                                                                >  1:360461/1‑139 (MQ=255)

                                tGCGGTCAACCTGTTTCGGCGTGAAGATGCCCAGACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAAACAACGCCCAGGTAGtt                                                                                                >  1:133020/1‑139 (MQ=255)

                                              ttCGGCGTGAAGATGCCCAGACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAAACAACGCCCAGGTAGTTGTCGAACCATGAGt                                                                                  <  1:56318/139‑1 (MQ=255)

                                                 ggCGTGAAGATGCCCAGACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAAACAACGCCCAGGTAGTTGTCGAACCATGAGTCGa                                                                               <  2:360461/139‑1 (MQ=255)

                                                   cGTGAAGATGCCCAGACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATa                                                                                                                             >  2:137371/1‑91 (MQ=255)

                                                   cGTGAAGATGCCCAGACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATa                                                                                                                             <  1:137371/91‑1 (MQ=255)

                                                                 gACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGAt                                                                                                                        <  1:597533/82‑1 (MQ=255)

                                                                 gACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGAt                                                                                                                        >  2:597533/1‑82 (MQ=255)

                                                                    ggTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAaaca                                                                                                              >  2:990820/1‑89 (MQ=255)

                                                                    ggTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAaaca                                                                                                              <  1:990820/89‑1 (MQ=255)

                                                                            ttATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAaaca                                                                                                              <  1:419117/81‑1 (MQ=255)

                                                                            ttATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAaaca                                                                                                              >  2:419117/1‑81 (MQ=255)

                                                                                       cccGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAAACAACGcc                                                                                                         >  2:1040588/1‑75 (MQ=255)

                                                                                       cccGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAAACAACGcc                                                                                                         <  1:1040588/75‑1 (MQ=255)

                                                                                       cccGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAAACAACGCCCAGGTAGTTGTCGAACCATGAGTCGATAATTAGTGCCTGCAACGGGCCTTCCGGa                                                  <  1:447416/130‑1 (MQ=255)

                                                                                       cccGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAAACAACGCCCAGGTAGTTGTCGAACCATGAGTCGATAATTAGTGCCTGCAACGGGCCTTCCGGa                                                  >  2:447416/1‑130 (MQ=255)

                                                                                         cGGTACTCATGACTTTCACTTTGTCGTCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAAACAACGCCCAGGTAGTTGTCGAACCAt                                                                                      <  2:895812/92‑1 (MQ=255)

                                                                                         cGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAAACAACGCCCAGGTAGTTGTCGAACCAt                                                                                      >  1:895812/1‑92 (MQ=255)

                                                                                            tACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAAACAACGCCCAGGTAGTTGTCGAACCATGAGTCGATAATTAGTGCCTGCAACGGGCCTTCCGGATCGCCTTCcggcgg                                    >  2:691493/1‑139 (MQ=255)

                                                                                                 aTGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGAt                                                                                                                        <  1:908333/50‑1 (MQ=255)

                                                                                                 aTGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGAt                                                                                                                        >  2:908333/1‑50 (MQ=255)

                                                                                                 aTGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAAACAACGCCCAgg                                                                                                     <  1:956953/69‑1 (MQ=255)

                                                                                                 aTGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAAACAACGCCCAgg                                                                                                     >  2:956953/1‑69 (MQ=255)

                                                                                                 aTGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAAACAACGCCCAGGTAGTTGTCGAACCATGAGTCGATAATTAGTGCCTGCAACGGGCCTTCCGGATCGCCTTCCGGCGGCGGaa                               >  2:49819/1‑139 (MQ=255)

                                                                                                 aTGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAAACAACGCCCAGGTAGTTGTCGAACCATGAGTCGATAATTAGTGCCTGCAACGGGCCTTCCGGATCGCCTTCCGGCGGCGGaa                               <  1:691493/139‑1 (MQ=255)

                                                                                                 aTGACTTTCACTTTGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAAACAACGCCCAGGTAGTTGTCGAACCATGAGTCGATAATTAGTGCCTGCAACGGGCCTTCCGGATCGCCTTCCGGCGGCGGaa                               >  1:405413/1‑139 (MQ=255)

                                                                                                             ttGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAaacaa                                                                                                             <  1:273226/49‑1 (MQ=255)

                                                                                                             ttGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAaacaa                                                                                                             >  2:273226/1‑49 (MQ=255)

                                                                                                             ttGTCGCCCTTACGCAGGGTGCTGTTTTTAATACGGATAAGTGAAACAACGCCCAGGTAGTTGTCGAACCATGAGTCGATAATTAGTGCCTGCAACGGGCCTTCCGGATCGCCTTCCGGCGGCGGAATGTCGCGCACCa                   >  2:486081/1‑139 (MQ=255)

                                                                                                                              ggTGCTGTTTTTAATACGGATAAGTGAAACAACGCCCAGGTAGTTGTCGAACCATGAGTCGATAATTAGTGCCTGCAACGGGCCTTCCGGATCGCCTTCCGGCGGCGGAATGTCGCGCACCAGACGtt             <  2:622331/128‑1 (MQ=255)

                                                                                                                              ggTGCTGTTTTTAATACGGATAAGTGAAACAACGCCCAGGTAGTTGTCGAACCATGAGTCGATAATTAGTGCCTGCAACGGGCCTTCCGGATCGCCTTCCGGCGGCGGAATGTCGCGCACCAGACGtt             >  1:622331/1‑128 (MQ=255)

                                                                                                                              ggTGCTGTTTTTAATACGGATAAGTGAAACAACGCCCAGGTAGTTGTCGAACCATGAGTCGATAATTAGTGCCTGCAACGGGCCTTCCGGATCGCCTTCCGGCGGCGGAATGTCGCGCACCAGACGTTCGAGAACGTcc  >  2:676843/1‑139 (MQ=255)

GAGCCAGCCTACTTCGCCACATTTCAGTTCAGTGCGGTCAACCTGTTTCGGCGTGAAGATGCCCAGACGGTCGGCGTTATAGGTCTGCCCGGTACTCATGACTTTCACTTTGTCGCCCTTACGCAGGGTGCCGTTTTTAATACGGATAAGTGAAACAACGCCCAGGTAGTTGTCGAACCATGAGTCGATAATTAGTGCCTGCAACGGGCCTTCCGGATCGCCTTCCGGCGGCGGAATGTCGCGCACCAGACGTTCGAGAACGTCC  >  NC_000913/2706351‑2706615

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A