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
A3 F50 I2 R1	193	39.9	1341687	91.8%	1231668	149.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,539,343	T→C	E1083G (GAA→GGA)	narZ ←	nitrate reductase 2 (NRZ), alpha subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,539,343	0	T	C	100.0%	140.0 / NA	38	E1083G (GAA→GGA)	narZ	nitrate reductase 2 (NRZ), alpha subunit
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (20/18); total (20/18)

ATCGACAATGGTCAGTTCTCGGGCATCTGTTTCGCTGATCCAGACAATCGGTCCACCGCGAGAGAGCGTCAGCATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTTCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCACGCATCCACGGATGATCCTGATAGAGCTGCTGGCGTCCCGACAGCGTGCG  >  NC_000913/1539198‑1539485

aTCGACAATGGTCAGTTCTCGGGCATCTGTTTCGCTGATCCAGACAATCGGTCCACCGCGAGAGAGCGTCAGCATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCggg                                                                                                                                           >  1:539640/1‑151 (MQ=255)

     cAATGGTCAGTTCTCGGGCATCTGTTTCGCTGATCCAGACAATCGGTCCACCGCGAGAGAGCGTCAGCATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGcc                                                                                                                                      >  1:437321/1‑151 (MQ=255)

      aaTGGTCAGTTCTCGGGCATCTGTTTCGCTGATCCAGACAATCGGTCCACCGCGAGAGAGCGTCAGCATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCg                                                                                                                                     <  1:243627/151‑1 (MQ=255)

       aTGGTCAGTTCTCGGGCATCTGTTTCGCTGATCCAGACAATCGGTCCACCGCGAGAGAGCGTCAGCATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGt                                                                                                                                    <  1:435601/151‑1 (MQ=255)

              gTTCTCGGGCATCTGTTTCGCTGATCCAGACAATCGGTCCACCGCGAGAGAGCGTCAGCATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCgg                                                                                                                             <  1:434657/151‑1 (MQ=255)

                   cGGGCATCTGTTTCGCTGATCCAGACAATCGGTCCACCGCGAGAGAGCGTCAGCATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTAt                                                                                                                          <  1:617701/149‑1 (MQ=255)

                    gggCATCTGTTTCGCTGATCCAGACAATCGGTCCACCGCGAGAGAGCGTCAGCATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTg                                                                                                                       <  2:181908/151‑1 (MQ=255)

                                  cTGATCCAGACAATCGGTCCACCGCGAGAGAGCGTCAGCATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTg                                                                                                          >  1:614287/1‑150 (MQ=255)

                                    gATCCAGACCATCGGTCCACCGCGAGAGAGCGTCAGCATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGAc                                                                                                        >  1:543637/1‑150 (MQ=255)

                                     aTCCAGACAATCGGTCCACCGCGAGAGAGCGTCAGCATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGc                                                                                                      <  2:29395/151‑1 (MQ=255)

                                       ccAGACAATCGGTCCACCGCGAGAGAGCGTCAGCATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCt                                                                                                     >  1:524485/1‑150 (MQ=255)

                                                 ggTCCACCGCGAGAGAGCGTCAGCATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCg                                                                                           >  1:410247/1‑150 (MQ=255)

                                                   tCCACCGCGAGAGAGCGTCAGCATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGAt                                                                                         >  2:120661/1‑150 (MQ=255)

                                                        cgcgAGAGAGCGTCAGCATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAggcgg                                                                                   <  1:288631/151‑1 (MQ=255)

                                                         gcgAGAGAGCGTCAGCATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAggcggg                                                                                  >  1:516990/1‑151 (MQ=255)

                                                              agagCGTCAGCATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGAt                                                                              >  2:495281/1‑150 (MQ=255)

                                                                  cGTCAGCATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCTGGCGATAAGcc                                                                         <  2:77133/151‑1 (MQ=255)

                                                                        cATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAgg                                                                   >  1:575821/1‑151 (MQ=255)

                                                                                ggTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCAcc                                                           >  1:585672/1‑151 (MQ=255)

                                                                                       aCTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCa                                                    <  2:281190/151‑1 (MQ=255)

                                                                                          gTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCAc                                                   <  2:584374/149‑1 (MQ=255)

                                                                                          gTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCACGc                                                 <  2:215687/151‑1 (MQ=255)

                                                                                                  aGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCACGCATCCACgg                                         <  2:581507/151‑1 (MQ=255)

                                                                                                   gTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCACGCATCCACGga                                        <  2:222936/151‑1 (MQ=255)

                                                                                                          ccccATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCACGCATCCACGGATGATCCt                                 <  1:289012/151‑1 (MQ=255)

                                                                                                            ccATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCACGCATCCACGGATGATCCTg                                >  2:282055/1‑150 (MQ=255)

                                                                                                                   tGGTGCGGCGTCAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCACGCATCCACGGATGATCCTGATAGAgct                        >  1:102723/1‑151 (MQ=255)

                                                                                                                              cAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCACGCATCCACGGATGATCCTGATAGAGCTGCTGGCGTccc             >  1:382966/1‑151 (MQ=255)

                                                                                                                              cAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCACGCATCCACGGATGATCCTGATAGAGCTGCTGGCGTccc             >  2:15225/1‑151 (MQ=255)

                                                                                                                              cAGGAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCACGCATCCACGGATGATCCTGATAGAGCTGCTGGCGTcc              <  1:248393/150‑1 (MQ=255)

                                                                                                                                ggAAGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCACGCATCCACGGATGATCCTGATAGAGCTGCTGGCGTCCCg            >  2:205668/1‑150 (MQ=255)

                                                                                                                                   aGTTAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCACGCATCCACGGATGATCCTGATAGAGCTGCTGGCGTCCCGAc          >  1:646533/1‑149 (MQ=255)

                                                                                                                                      tAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCACGCATCCACGGATGATCCTGATAGAGCTGCTGGCGTCCCGACAGCg      >  1:101158/1‑150 (MQ=255)

                                                                                                                                      tAAGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCACGCATCCACGGATGATCCTGATAGAGCTGCTGGCGTCCCGACAGCGt     >  2:168190/1‑151 (MQ=255)

                                                                                                                                       aaGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCACGCATCCACGGATGATCCTGATAGAGCTGCTGGCGTCCCGACAGCGTg    <  1:461017/151‑1 (MQ=255)

                                                                                                                                        aGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCACGCATCCACGGATGATCCTGATAGAGCTGCTGGCGTCCCGACAGCGTgc   >  2:144893/1‑151 (MQ=255)

                                                                                                                                        aGTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCACGCATCCACGGATGATCCTGATAGAGCTGCTGGCGTCCCGACAGCGTgc   <  2:587455/151‑1 (MQ=255)

                                                                                                                                         gTGCTTTTCCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCACGCATCCACGGATGATCCTGATAGAGCTGCTGGCGTCCCGACAGCGTgcg  <  2:172134/151‑1 (MQ=255)

ATCGACAATGGTCAGTTCTCGGGCATCTGTTTCGCTGATCCAGACAATCGGTCCACCGCGAGAGAGCGTCAGCATTAGCAGGTTTTCACTGTAGGTTGAGTGAATGCCCCATTTCTGGTGCGGCGTCAGGAAGTTAAGTGCTTTTTCCGGGAAGCCGTTTGGCGGTATCTGGCGCATCTCACTGACGCTACGGGTGTCGATAGGCGGGCGATAAGCCACCAGGCTTTCACCAAAAGCACGCATCCACGGATGATCCTGATAGAGCTGCTGGCGTCCCGACAGCGTGCG  >  NC_000913/1539198‑1539485

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A