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
A8 F1 I1 R1	771	44.8	2153074	94.1%	2026042	109.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,719,768	G→A	97 (TAG→TAA)	yiaG →	HTH_CROC1 family putative transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,719,768	0	G	A	100.0%	133.7 / NA	42	97 (TAG→TAA)	yiaG	HTH_CROC1 family putative transcriptional regulator
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (21/21); total (21/21)

GGTTTTGGGCGTATCAGTCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGTTTGACGTA  >  NC_000913/3719639‑3719902

ggTTTTGGGCGTATCAGTCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATc                                                                                                                               <  1:614543/139‑1 (MQ=255)

 gTTTTGGGCGTATCAGTCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATcc                                                                                                                              >  1:866479/1‑139 (MQ=255)

 gTTTTGGGCGTATCAGTCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATcc                                                                                                                              >  1:456210/1‑139 (MQ=255)

            aTCAGTCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCa                                                                                                                             <  2:155540/129‑1 (MQ=255)

            aTCAGTCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCa                                                                                                                             >  1:155540/1‑129 (MQ=255)

            aTCAGTCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCa                                                                                                                             <  2:533388/129‑1 (MQ=255)

            aTCAGTCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCa                                                                                                                             >  1:533388/1‑129 (MQ=255)

            aTCAGTCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCt                                                                                                                   <  1:354222/139‑1 (MQ=255)

                 tCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTa                                                                                                              >  2:85883/1‑139 (MQ=255)

                        ggTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCt                                                                                                       <  2:945152/139‑1 (MQ=255)

                                  tGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTa                                                                                                              <  2:224594/122‑1 (MQ=255)

                                  tGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTa                                                                                                              >  1:224594/1‑122 (MQ=255)

                                   gggAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGGTGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGAc                                                                                            >  2:759278/1‑139 (MQ=255)

                                   gggAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGAc                                                                                            >  2:852908/1‑139 (MQ=255)

                                      aaTCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGt                                                                                         >  1:1044788/1‑139 (MQ=255)

                                          cAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTc                                                                                     >  1:15183/1‑139 (MQ=255)

                                             aCGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAg                                                                                               >  1:494407/1‑126 (MQ=255)

                                             aCGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAg                                                                                               <  2:494407/126‑1 (MQ=255)

                                                  tGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTa                                                                                                              <  1:40790/106‑1 (MQ=255)

                                                  tGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTa                                                                                                              >  2:40790/1‑106 (MQ=255)

                                                  tGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGAt                                                                             <  1:852908/139‑1 (MQ=255)

                                                         ttCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCAt                                                                      >  2:345197/1‑139 (MQ=255)

                                                         ttCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCAt                                                                      >  2:272979/1‑139 (MQ=255)

                                                                      cTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAaat                                                         <  2:742010/139‑1 (MQ=255)

                                                                               aTGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACa                                                                                                <  1:1062281/91‑1 (MQ=255)

                                                                               aTGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACa                                                                                                >  2:1062281/1‑91 (MQ=255)

                                                                                tGCGTTTGATTCAAGCCAATCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCa                                               <  1:186920/139‑1 (MQ=255)

                                                                                                 aaCCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGa                                                                              <  2:740068/91‑1 (MQ=255)

                                                                                                 aaCCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGa                                                                              >  1:740068/1‑91 (MQ=255)

                                                                                                 aaCCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTg                              <  1:85883/139‑1 (MQ=255)

                                                                                                   cccGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGAt                                                                             <  1:903466/90‑1 (MQ=255)

                                                                                                   cccGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGAt                                                                             >  2:903466/1‑90 (MQ=255)

                                                                                                   cccGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCAt                                              <  1:755618/121‑1 (MQ=255)

                                                                                                   cccGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCAt                                              >  2:755618/1‑121 (MQ=255)

                                                                                                        cATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAAt                       >  1:121951/1‑139 (MQ=255)

                                                                                                             agtaagCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCt                                                                                                       <  1:881357/54‑1 (MQ=255)

                                                                                                             agtaagCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCt                                                                                                       >  2:881357/1‑54 (MQ=255)

                                                                                                                aagCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCa               <  2:456210/139‑1 (MQ=255)

                                                                                                                             aaTAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATATATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGTTTGACGTa  >  2:356158/1‑139 (MQ=255)

                                                                                                                             aaTAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGTTTGACGTa  <  2:191264/139‑1 (MQ=255)

                                                                                                                             aaTAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGTTTGACGTa  <  1:461494/139‑1 (MQ=255)

                                                                                                                             aaTAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGTTTGACGTa  <  1:272979/139‑1 (MQ=255)

GGTTTTGGGCGTATCAGTCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGTTTGACGTA  >  NC_000913/3719639‑3719902

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 28 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A