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
A0 F0 I1 R1	715	38.4	1606192	96.6%	1551581	120.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	586,280	T→C	N210S (AAC→AGC)	envY ←	porin thermoregulatory transcriptional activator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	586,280	0	T	C	100.0%	171.3 / NA	47	N210S (AAC→AGC)	envY	porin thermoregulatory transcriptional activator
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (25/22); total (25/22)

CTTCACCACATCACTTTTTGTCGCTGTTTGGCGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGTTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTGGGGCTTAAACATAGCGAACTGGCGACAATTCGCA  >  NC_000913/586145‑586415

cTTCACCACATCACTTTTTGTCGCTGTTTGGCGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTAt                                                                                                                                      <  2:259950/139‑1 (MQ=255)

   caccacATCACTTTTTGTCGCTGTTTGGCGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCa                                                                                                                                   <  2:763459/139‑1 (MQ=255)

        caTCACTTTTTGTCGCTGTTTGGCGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAAt                                                                                                                              >  1:703601/1‑139 (MQ=255)

        caTCACTTTTTGTCGCTGTGTGGCGAGATAATTCGACGGTGTCAGGCCGTAAAACGCCTTACAAACAGAGTTAAAGTACGACGTGCGGCTAGAGCCACCTAATTGCGCCACCGGAGTGATATTTTTGCTATCCaagaat                                                                                                                              >  1:585424/1‑134 (MQ=255)

         aTCACTTTTTGTCGCTGTTTGGCGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCa                                                                                                                                   <  2:34784/133‑1 (MQ=255)

         aTCACTTTTTGTCGCTGTTTGGCGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCa                                                                                                                                   >  1:34784/1‑133 (MQ=255)

              tttttGTCGCTGTTTGGCGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATc                                                                                                                        >  1:72230/1‑139 (MQ=255)

                  tGTCGCTGTTTGGCGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTa                                                                                                                    <  2:789944/139‑1 (MQ=255)

                                   aTAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGa                                                                                                   <  2:72230/139‑1 (MQ=255)

                                   aTAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGa                                                                                                   <  1:471254/139‑1 (MQ=255)

                                     aaTTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGaca                                                                                                 <  1:636827/139‑1 (MQ=255)

                                           aCGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCtgt                                                                                           <  2:310165/139‑1 (MQ=255)

                                            cGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCtgtg                                                                                          >  2:67872/1‑139 (MQ=255)

                                                 tCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAAt                                                                                     >  1:136301/1‑139 (MQ=255)

                                                       cGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCt                                                                               >  1:127468/1‑139 (MQ=255)

                                                         tAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGaca                                                                                                 >  1:435693/1‑119 (MQ=255)

                                                         tAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGaca                                                                                                 <  2:435693/119‑1 (MQ=255)

                                                         tAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCtat                                                                             >  2:758006/1‑139 (MQ=255)

                                                                                      cgacgTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCtgt                                                                                           >  1:628986/1‑96 (MQ=255)

                                                                                      cgacgTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCtgt                                                                                           <  2:628986/96‑1 (MQ=255)

                                                                                      cgacgTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATTGCTGTTATTTTCGTTTTTTAATTTCttt                                                >  1:605520/1‑139 (MQ=255)

                                                                                      cgacgTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCttt                                                >  1:632367/1‑139 (MQ=255)

                                                                                         cgTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTg                                             >  1:589567/1‑139 (MQ=255)

                                                                                           tgctgcTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGa                                                                                                   >  1:596321/1‑83 (MQ=255)

                                                                                           tgctgcTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGa                                                                                                   <  2:596321/83‑1 (MQ=255)

                                                                                           tgctgcTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAg                                           >  2:315723/1‑139 (MQ=255)

                                                                                           tgctgcTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAg                                           <  2:703601/139‑1 (MQ=255)

                                                                                           tgctgcTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAg                                           >  2:427324/1‑139 (MQ=255)

                                                                                           tgctgcTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAg                                           <  2:127468/139‑1 (MQ=255)

                                                                                           tgctgcTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAg                                           <  1:315723/139‑1 (MQ=255)

                                                                                           tgctgcTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAg                                           <  2:632367/139‑1 (MQ=255)

                                                                                              tgctATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAg                                        >  1:483563/1‑139 (MQ=255)

                                                                                                 tataGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCt                                     <  2:367922/139‑1 (MQ=255)

                                                                                                 tataGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCt                                     <  1:758006/139‑1 (MQ=255)

                                                                                                     gCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTgggg                                 >  2:580481/1‑139 (MQ=255)

                                                                                                     gCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTgggg                                 >  1:454109/1‑139 (MQ=255)

                                                                                                        acaTAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTGGGGCtt                              <  1:254479/139‑1 (MQ=255)

                                                                                                        acaTAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTGGGGCtt                              >  1:516343/1‑139 (MQ=255)

                                                                                                               tGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTATGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTGGGGCTTAAACATa                       >  2:752042/1‑139 (MQ=255)

                                                                                                                 cgcCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAAt                                                                                     <  2:50174/75‑1 (MQ=255)

                                                                                                                 cgcCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAAt                                                                                     >  1:50174/1‑75 (MQ=255)

                                                                                                                 cgcCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTGGGGCTTAAACATAGc                     >  1:266618/1‑139 (MQ=255)

                                                                                                                   ccACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTGGGGCTTAAACATAGCGa                   >  1:128637/1‑139 (MQ=255)

                                                                                                                    cACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTGGGGCTTAAACATAGCGaa                  >  1:735134/1‑139 (MQ=255)

                                                                                                                                 tttttGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTGGGGCTTAAACATAGCGAACTGGCGACAATTc     >  2:48682/1‑139 (MQ=255)

                                                                                                                                  ttttGCTATCCATCAATAGCATCTGTACGACGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTGGGGCTTAAACATAGCGAACTGGCGACAATTCg    <  2:781467/139‑1 (MQ=255)

                                                                                                                                  ttttGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTGGGGCTTAAACATAGCGAACTGGCGACAATTCg    <  1:748328/139‑1 (MQ=255)

                                                                                                                                    ttGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTGGGGCTTAAACATAGCGAACTGGCGACAATTCGCa  <  1:48682/139‑1 (MQ=255)

CTTCACCACATCACTTTTTGTCGCTGTTTGGCGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGTTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTGGGGCTTAAACATAGCGAACTGGCGACAATTCGCA  >  NC_000913/586145‑586415

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