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
A9 F48 I1 R1	82	50.4	1709896	99.0%	1692797	139.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,154,419	G→T	A267E (GCG→GAG)	yqhC ←	DNA‑binding transcriptional activator YqhC

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,154,419	0	G	T	100.0%	115.0 / NA	34	A267E (GCG→GAG)	yqhC	DNA‑binding transcriptional activator YqhC
Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (17/17); total (17/17)

TGCCGCATCTTCCCCCGGCGTCACACCGAAGTAACGTTTAAACTCACGGCTAAATTGCGATGCGCTTTCATAGCCGACGCGCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCGCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGCTCATGTTGGCTTCTGCCGCCAGTTGCTCGACGCTCAGGTTTTCGGTGTAT  >  NC_000913/3154289‑3154553

tGCCGCATCTTTCCCCGGCGTCACACCGAAGTAACGTTTAAACTCACGGCTAAATTGCGATGCGCTTTCATAGCCGACGCGCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCa                                                                                                                               <  2:368429/140‑1 (MQ=255)

tGCCGCATCTTCCCCCGGCGTCACACCGAAGTAACGTTTAAACTCACGGCTAAATTGCGATGCGCTTTCATAGCCGACGCGCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCa                                                                                                                               <  2:74092/140‑1 (MQ=255)

       tCTTCCCCCGGCGTCACACCGAAGTAACGTTTAAACTCACGGCTAAATTGCGATGCGCTTTCATAGCCGACGCGCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTa                                                                                                                        <  2:245340/140‑1 (MQ=255)

         ttCCCCCGGCGTCACACCGAAGTAACGTTTAAACTCACGGCTAAATTGCGATGCGCTTTCATAGCCGACGCGCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAAt                                                                                                                      <  1:297733/140‑1 (MQ=255)

                  cGTCACACCGAAGTAACGTTTAAACTCACGGCTAAATTGCGATGCGCTTTCATAGCCGACGCGCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAAt                                                                                                             >  2:260380/1‑140 (MQ=255)

                    tCACACCGAAGTAACGTTTAAACTCACGGCTAAATTGCGATGCGCTTTCATAGCCGACGCGCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATAc                                                                                                           >  1:844039/1‑140 (MQ=255)

                     cacaCCGAAGTAACGTTTAAACTCACGGCTAAATTGCGATGCGCTTTCATAGCCGACGCGCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACt                                                                                                          >  2:71899/1‑140 (MQ=255)

                      acacCGAAGTAACGTTTAAACTCACGGCTAAATTGCGATGCGCTTTCATAGCCGACGCGCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACtt                                                                                                         >  2:327841/1‑139 (MQ=255)

                                aaCGTTTAAACTCACGGCTAAATTGCGATGCGCTTTCATAGCCGACGCGCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAg                                                                                               <  1:486678/140‑1 (MQ=255)

                                      tAAACTCACGGCTAAATTGCGATGCGCTTTCATAGCCGACGCGCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTg                                                                                         >  2:623612/1‑140 (MQ=255)

                                            cACGGCTAAATTGCGATGCGCTTTCATAGCCGACGCGCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACa                                                                                   <  1:688734/140‑1 (MQ=255)

                                             aCGGCTAAATTGCGATGCGCTTTCATAGCCGACGCGCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAg                                                                                  >  2:629547/1‑140 (MQ=255)

                                                         cGATGCGCTTTCATAGCCGACGCGCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGTCGAGGAACTGTTGACAGACTTAAAATTAt                                                                      >  2:832484/1‑140 (MQ=255)

                                                         cGATGCGCTTTCATAGCCGACGCGCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTAt                                                                      >  1:610151/1‑140 (MQ=255)

                                                              cgcTTTCATAGCCGACGCGCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTAtggtgg                                                                 >  1:125385/1‑140 (MQ=255)

                                                                      tAGCCGACGCGCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTGCTGGTGACAGACTTAAAATTATGGTGGAACGCCGa                                                         <  1:472856/140‑1 (MQ=255)

                                                                           gACGCGCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGc                                                    >  2:645705/1‑140 (MQ=255)

                                                                             cgcgCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGCTc                                                  >  1:818238/1‑140 (MQ=255)

                                                                             cgcgCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGCTc                                                  >  1:654280/1‑140 (MQ=255)

                                                                             cgcgCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGCTc                                                  >  1:590938/1‑140 (MQ=255)

                                                                                      ctgctgCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGCTCATGTTGGCt                                         >  2:314926/1‑140 (MQ=255)

                                                                                              cTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGCTCATGTTGGCTTCTgccgc                                 >  1:468441/1‑140 (MQ=255)

                                                                                              cTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGCTCATGTTGGCTTCTgccgc                                 >  2:577922/1‑140 (MQ=255)

                                                                                              cTGGCCTTCATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGCTCATGTTGGCTTCTgccgc                                 <  2:468441/140‑1 (MQ=255)

                                                                                                      cATGCCGTCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGCTCATGTTGGCTTCTGCCGCCAGTTGCt                         <  1:520788/140‑1 (MQ=255)

                                                                                                             tCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGCTCATGTTGGCTTCTGCCGCCAGTTGCTCGACGCt                  <  2:437774/140‑1 (MQ=255)

                                                                                                             tCATGGATGATCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGCTCATGTTGGCTTCTGCCGCCAGTTGCTCGACGCt                  <  2:654280/140‑1 (MQ=255)

                                                                                                                     gatCATCATCCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGCTCATGTTGGCTTCTGCCGCCAGTTGCTCGACGCTCAGGtttt          <  1:327841/140‑1 (MQ=255)

                                                                                                                      atcatcatcCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGCTCATGTTGGCTTCTGCCGCCAGTTGCTCGACGCTCAGGTTTTc         <  2:590938/140‑1 (MQ=255)

                                                                                                                        catcatcCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGCTCATGTTGGCTTCTGCCGCCAGTTGCTCGACGCTCAGGTTTTCgg       <  1:645705/140‑1 (MQ=255)

                                                                                                                        catcatcCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGCTCATGTTGGCTTCTGCCGCCAGTTGCTCGACGCTCAGGTTTTCgg       <  1:577922/140‑1 (MQ=255)

                                                                                                                          tcatcCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGCTCATGTTGGCTTCTGCCGCCAGTTGCTCGACGCTCAGGTTTTCGgtg     <  1:623612/140‑1 (MQ=255)

                                                                                                                             tcCGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGCTCATGTTGGCTTCTGCCGCCAGTTGCTCGACGCTCAGGTTTTCGGTGtat  >  1:189403/1‑140 (MQ=255)

                                                                                                                             accGCTCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGCTCATGTTGGCTTCTGCCGCCAGTTGCTCGACGCTCAGGTTTTCGGTGtat  <  2:140305/139‑1 (MQ=255)

TGCCGCATCTTCCCCCGGCGTCACACCGAAGTAACGTTTAAACTCACGGCTAAATTGCGATGCGCTTTCATAGCCGACGCGCATCGCTGCTGCGCTGGCCTTCATGCCGTCATGGATGATCATCATCCGCGCCTTATGCAGACGGTAATTCTTCAAATACTGCAACGGCGAGGTACTGGTGACAGACTTAAAATTATGGTGGAACGCCGATACGCTCATGTTGGCTTCTGCCGCCAGTTGCTCGACGCTCAGGTTTTCGGTGTAT  >  NC_000913/3154289‑3154553

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A