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	3,219,088	G→A	intergenic (‑12/‑406)	aer ← / → patA	fused signal transducer for aerotaxis sensory component/methyl accepting chemotaxis component/putrescine:2‑oxoglutaric acid aminotransferase, PLP‑dependent

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,219,088	0	G	A	100.0%	146.5 / NA	47	intergenic (‑12/‑406)	aer/patA	fused signal transducer for aerotaxis sensory component/methyl accepting chemotaxis component/putrescine:2‑oxoglutaric acid aminotransferase, PLP‑dependent
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (23/24); total (23/24)

GCTCACCTGCACAAAAGTGTCATTAGCATGAGTGATATAGCTTTGCAGATCGGTAGTGGACATCAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTGTGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCGGTTATCTTTAACCGATTAATTTGATTTAGATCGCAATTTGCGATTTAAACACAAATCTAATTCCTTGATTTAAAATACTTT  >  NC_000913/3218954‑3219223

gctcgccgacccaAAAGTGTCATTAGGATGAGTGATATAGCTTTGCAGATCGGTAGTGGACATCAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCa                                                                                                                                     <  2:565121/128‑1 (MQ=255)

gCTCACCTGCACAAAAGTGTCATTAGCATGAGTGATATAGCTTTGCAGATCGGTAGTGGACATCAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCa                                                                                                                                     <  2:25078/139‑1 (MQ=255)

gCTCACCTGCACAAAAGTGTCATTAGCATGAGTGATATAGCTTTGCAGATCGGTAGTGGACATCAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCa                                                                                                                                     <  2:630745/139‑1 (MQ=255)

  tCACCTGCACAAAAGTGTCATTAGCATGAGTGATATAGCTTTGCAGATCGGTAGTGGACATCAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAgg                                                                                                                                   >  1:279215/1‑139 (MQ=255)

   cACCTGCACAAAAGTGTCATTAGCATGAGTGATATAGCTTTGCAGATCGGTAGTGGACATCAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGt                                                                                                                                  >  1:345853/1‑139 (MQ=255)

                          cATGAGTGATATAGCTTTGCAGATCGGTAGTGGACATCAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTc                                                                                                           <  1:670949/139‑1 (MQ=255)

                                    ataGCTTTGCAGATCGGTAGTGGACATCAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTc                                                                                                           <  1:684357/129‑1 (MQ=255)

                                    ataGCTTTGCAGATCGGTAGTGGACATCAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTc                                                                                                           >  2:684357/1‑129 (MQ=255)

                                        cTTTTCAGATCGGTAGTGGACATCAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACAGATGAGAAGACATGTTCGCGTCCTATGc                                                                                                                                      >  2:541570/1‑98 (MQ=255)

                                        cTTTGCAGATCGGTAGTGGACATCAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGc                                                                                                                                      <  1:541570/98‑1 (MQ=255)

                                        cTTTGCAGATCGGTAGTGGACATCAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCgg                                                                                             >  2:347099/1‑139 (MQ=255)

                                             cAGATCGGTAGTGGACATCAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCg                                                                                        >  1:712588/1‑139 (MQ=255)

                                             cAGATCGGTAGTGGACATCAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCg                                                                                        >  1:907469/1‑139 (MQ=255)

                                                   ggTAGTGGACATCAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCgg                                                                                  <  1:137784/139‑1 (MQ=255)

                                                               cAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTtata                                                                                                                              >  1:6541/1‑83 (MQ=255)

                                                               cAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTtata                                                                                                                              <  2:6541/83‑1 (MQ=255)

                                                               cAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAActt                                                                                                                 >  2:838399/1‑96 (MQ=255)

                                                               cAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAActt                                                                                                                 <  1:838399/96‑1 (MQ=255)

                                                               cAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTg                                                                                     <  1:394528/124‑1 (MQ=255)

                                                               cAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTg                                                                                     >  2:394528/1‑124 (MQ=255)

                                                               cAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCGGTTATCTTTAAcc                                                                      >  2:913855/1‑139 (MQ=255)

                                                                 gagTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCGGTTATCTTTAACCGa                                                                    <  2:907469/139‑1 (MQ=255)

                                                                    tGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTTatat                                                                                                                             >  2:440090/1‑79 (MQ=255)

                                                                    tGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTTatat                                                                                                                             <  1:440090/79‑1 (MQ=255)

                                                                      gTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTTATATCGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCGGTTATCTTTAACCGATTAAt                                                               <  2:600396/139‑1 (MQ=255)

                                                                       tATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCa                                                                                                                                     >  2:156530/1‑68 (MQ=255)

                                                                       tATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCa                                                                                                                                     <  1:156530/68‑1 (MQ=255)

                                                                                ccAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGc                                                                                                                                      <  2:208302/58‑1 (MQ=255)

                                                                                ccAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGc                                                                                                                                      >  1:208302/1‑58 (MQ=255)

                                                                                       ggTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCGGTTATCTTTAACCGATTAATTGGATTTAGATCGCAAt                                              >  2:738548/1‑139 (MQ=255)

                                                                                                     tGACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCGGTTATCTTTAACCGATTAATTTGATTTAGATCGCAATTTGCGATTTAAaca                                >  2:839030/1‑139 (MQ=255)

                                                                                                      gACATACGGATGAGAAGACATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCGGTTATCTTTAACCGATTAATTTGATTTAGATCGCAATTTGCGATTTAAacac                               <  2:712588/139‑1 (MQ=255)

                                                                                                               aTGAGAAGACATGTTCGCTTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCGGTTATCTTTa                                                                         <  1:419065/88‑1 (MQ=255)

                                                                                                               aTGAGAAGACATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCGGTTATCTTTa                                                                         >  2:419065/1‑88 (MQ=255)

                                                                                                                  agaagaCATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCgg                                                                                  <  1:411235/76‑1 (MQ=255)

                                                                                                                  agaagaCATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCgg                                                                                  >  2:411235/1‑76 (MQ=255)

                                                                                                                   gaagaCATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCGGTTATCTTTaa                                                                        >  2:110823/1‑85 (MQ=255)

                                                                                                                   gaagaCATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCGGTTATCTTTaa                                                                        <  1:110823/85‑1 (MQ=255)

                                                                                                                     agaCATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCATAGTTTATGTCGGCCCCGCTGCGGTTATCTTCAACCGATTAATTTGATTTAGATCGCAATTTGCGATTTAAACACAAATCTAATTCCTTg                <  2:139215/139‑1 (MQ=255)

                                                                                                                      gaCATGTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCGGTTATCTTTAACCGATTAATTTGATTTAGATCGCAATTTGCGATTTAAACACAAATCTAATTCCTTGa               >  2:832549/1‑139 (MQ=255)

                                                                                                                           gTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGt                                                                                                <  2:697041/53‑1 (MQ=255)

                                                                                                                           gTTCGCGTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGt                                                                                                >  1:697041/1‑53 (MQ=255)

                                                                                                                              cgcgTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCGGTTATCTTTAACCGATTAATTTGATTTAGATCGCAATTTGCGATTTa                                    >  1:202618/1‑110 (MQ=255)

                                                                                                                              cgcgTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCGGTTATCTTTAACCGATTAATTTGATTTAGATCGCAATTTGCGATTTa                                    <  2:202618/110‑1 (MQ=255)

                                                                                                                              cgcgTCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCGGTTATCTTTAACCGATTAATTTGATTTAGATCGCAATTTGCGATTTAAACACAAATCTAATTCCTTGATTTAAAAt       >  1:547803/1‑139 (MQ=255)

                                                                                                                                  tCCTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCGGTTATCTTTAACCGATTAATTTGATTTAGATCGCAATTTGCGATTTAAACACAAATCTAATTCCTTGATTTAAAATACtt   <  2:279215/139‑1 (MQ=255)

                                                                                                                                   ccTATGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCGGTTATCTTTAACCGATTAATTTGATTTAGATCGCAATTTGCGATTTAAACACAAATCTAATTCCTTGATTTAAAATACttt  <  2:547803/139‑1 (MQ=255)

GCTCACCTGCACAAAAGTGTCATTAGCATGAGTGATATAGCTTTGCAGATCGGTAGTGGACATCAGAGTGGTATCGTCCGCCAGCGGGGTATTTTGCTGGGTGACATACGGATGAGAAGACATGTTCGCGTCCTGTGCAGGTTATATGGTTGTTAACTTCTTGTCAGAGTTTATGTCGGCCCCGCTGCGGTTATCTTTAACCGATTAATTTGATTTAGATCGCAATTTGCGATTTAAACACAAATCTAATTCCTTGATTTAAAATACTTT  >  NC_000913/3218954‑3219223

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