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
A7 F1 I1 R1	776	60.0	3074904	90.1%	2770488	104.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,158,637	C→T	R50W (CGG→TGG)	oxyR →	oxidative and nitrosative stress transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,158,637	0	C	T	100.0%	145.2 / NA	45	R50W (CGG→TGG)	oxyR	oxidative and nitrosative stress transcriptional regulator
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (21/24); total (21/24)

ATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGAAAGTCCTTAAAGAGATGGCAAGCCAGCAGGGCGAGACGATGTCCGGACC  >  NC_000913/4158503‑4158764

aTCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGAc                                                                                                                             <  1:1528277/139‑1 (MQ=255)

aTCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGAc                                                                                                                             <  2:75366/139‑1 (MQ=255)

  cTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCa                                                                                                                           <  1:457995/139‑1 (MQ=255)

   ttGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAg                                                                                                                          >  2:744892/1‑139 (MQ=255)

      aGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCg                                                                                                                       >  2:560575/1‑139 (MQ=255)

           cTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAg                                                                                                                  >  1:1288486/1‑139 (MQ=255)

             ggtggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGAc                                                                                                                             <  2:38105/126‑1 (MQ=255)

             ggtggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGAc                                                                                                                             >  1:38105/1‑126 (MQ=255)

             ggtggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAg                                                                                                                          <  2:143609/129‑1 (MQ=255)

             ggtggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAg                                                                                                                          >  1:143609/1‑129 (MQ=255)

               tggCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGtgtt                                                                                                              <  1:966401/139‑1 (MQ=255)

                  cATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAgtgtgttc                                                                                                           >  2:1463549/1‑135 (MQ=255)

                       gCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCAccc                                                                                                      <  2:457467/139‑1 (MQ=255)

                       gCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCAccc                                                                                                      >  1:789666/1‑139 (MQ=255)

                           aaCACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGc                                                                                                  >  2:780484/1‑139 (MQ=255)

                                cGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGaa                                                                                             >  1:297272/1‑139 (MQ=255)

                                cGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGaa                                                                                             >  2:110372/1‑139 (MQ=255)

                                  ccATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAAtg                                                                                           <  1:744892/139‑1 (MQ=255)

                                         cGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCtgg                                                                                    <  1:780484/139‑1 (MQ=255)

                                             atctgccgcacgccTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGa                                                                                >  2:1095003/13‑139 (MQ=255)

                                              tctgccgcacgccTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGAt                                                                               <  1:1095003/128‑1 (MQ=255)

                                                           tGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGAc                                                                                                                             >  1:1437965/1‑80 (MQ=255)

                                                           tGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGAc                                                                                                                             <  2:1437965/80‑1 (MQ=255)

                                                            gCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGt                                                                 <  2:1323727/139‑1 (MQ=255)

                                                                    agccagccGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTg                                                         <  1:532442/139‑1 (MQ=255)

                                                                          ccGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTa                                                                     <  1:136748/121‑1 (MQ=255)

                                                                          ccGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTa                                                                     >  2:136748/1‑121 (MQ=255)

                                                                          ccGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTG‑TGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGaa                                                  <  1:1463549/139‑1 (MQ=255)

                                                                           cGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGaa                                                  <  2:593218/139‑1 (MQ=255)

                                                                           cGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGaa                                                  <  1:1058400/139‑1 (MQ=255)

                                                                                  tAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGAAAGTCCtt                                           <  1:798595/139‑1 (MQ=255)

                                                                                        gCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGAAAGTCCTTAAagag                                     >  1:1100827/1‑139 (MQ=255)

                                                                                          aaaTTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGAAAGTCCTTAAAGAGAt                                   <  1:110372/139‑1 (MQ=255)

                                                                                           aaTTCGTAAGCTGGAAGTTGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGAt                                                                               <  2:1099971/94‑1 (MQ=255)

                                                                                           aaTTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGAt                                                                               >  1:1099971/1‑94 (MQ=255)

                                                                                                  aaGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGAAAGTCCTTAAAGAGATGGCAAGcc                           <  2:1288486/139‑1 (MQ=255)

                                                                                                      tGGAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGAAAGTCCTTGAAGAGATGGCAAGCcagca                       >  2:786200/1‑139 (MQ=255)

                                                                                                        gAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCa                                                                                                                           <  2:829548/37‑1 (MQ=255)

                                                                                                        gAAGATGAGCTGGGCGTGATGTTGCTGGAGTGGACCa                                                                                                                           >  1:829548/1‑37 (MQ=255)

                                                                                                                gCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGAAAGTCCTTAAAGAGATGGCAAGCCAGCAGGGCGAGACg             >  2:373363/1‑139 (MQ=255)

                                                                                                                gCTGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGAAAGTCCTTAAAGAGATGGCAAGCCAGCAGGGCGAGACg             <  2:789666/139‑1 (MQ=255)

                                                                                                                  tGGGCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGAGTTGTTCACCAAGGCGGGAATGCTGCAGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGAAAGTCCTTAAAGAGATGGCAAGCCAGCAGGGCGAGACGAt           >  1:976523/1‑139 (MQ=255)

                                                                                                                    ggCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATgctgct                                                                                      >  2:749783/1‑62 (MQ=255)

                                                                                                                    ggCGTGATGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATgctgct                                                                                      <  1:749783/62‑1 (MQ=255)

                                                                                                                           tGTTGCTGGAGTGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGAAAGTCCTTAAAGAGATGGCAAGCCAGCAGGGCGAGACGATGTCCGGAcc  >  2:1369119/1‑139 (MQ=255)

ATCTTGAGTACCTGGTGGCATTGGCTGAACACCGCCATTTTCGGCGTGCGGCAGATTCCTGCCACGTTAGCCAGCCGACGCTTAGCGGGCAAATTCGTAAGCTGGAAGATGAGCTGGGCGTGATGTTGCTGGAGCGGACCAGCCGTAAAGTGTTGTTCACCCAGGCGGGAATGCTGCTGGTGGATCAGGCGCGTACCGTGCTGCGTGAGGTGAAAGTCCTTAAAGAGATGGCAAGCCAGCAGGGCGAGACGATGTCCGGACC  >  NC_000913/4158503‑4158764

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A