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
A23 F999 I0 R1	108	31.0	2704742	83.3%	2253050	49.6

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,816,579	G→A	intergenic (‑30/‑97)	rph ← / → yicC	truncated RNase PH/UPF0701 family protein YicC

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,816,579	0	G	A	100.0%	85.4 / NA	26	intergenic (‑30/‑97)	rph/yicC	truncated RNase PH/UPF0701 family protein YicC
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (12/14); total (12/14)

CGGCCTGCTGGACGCATATTGAAATCTCCGGCTTGAAACAAATGTGGCTGCGCATTATACGGACTTCCGGCGGTTATTCCTATCCTGACAAGG  >  NC_000913/3816533‑3816625

cGGCCTGCTGGACGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTg                                             <  1:2676470/50‑1 (MQ=255)

 ggCCTGCTGGACGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTgc                                            <  1:2248410/50‑1 (MQ=255)

       ctgGACGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATta                                      <  1:1418715/50‑1 (MQ=255)

       ctgGACGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATta                                      >  1:2169868/1‑50 (MQ=255)

       ctgGACGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATta                                      <  1:2515144/50‑1 (MQ=255)

        tgGACGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATta                                      >  1:236102/1‑49 (MQ=255)

          gACGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATTATAc                                   <  1:1750200/50‑1 (MQ=255)

           aCGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATTATACg                                  <  1:1491584/50‑1 (MQ=255)

            cGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATTATACgg                                 <  1:1152244/50‑1 (MQ=255)

            cGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATTATACg                                  >  1:553508/1‑49 (MQ=255)

               atatTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATTATACGGACt                              >  1:273025/1‑50 (MQ=255)

                tatTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATTATACGGACtt                             >  1:1637942/1‑50 (MQ=255)

                  ttGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATTATACGGACTTc                            <  1:407779/49‑1 (MQ=255)

                    gAAATCTCCGGCTTGAAACAAATGTGACTGCGCATTATACGGACTTCcg                          <  1:1631277/49‑1 (MQ=255)

                    gAAATCTCCGGCTTGAAACAAATGTGACTGCGCATTATACGGACTTCcg                          <  1:887577/49‑1 (MQ=255)

                        tctcCGGCTTGAAACAAATGTGACTGCGCATTATACGGACTTCCGGCGGt                     >  1:1342564/1‑50 (MQ=255)

                            cGGCTTGAAACAAATGTGACTGCGCATTATACGGACTTCCGGCGGt                     <  1:2514817/46‑1 (MQ=255)

                              gCTTGAAACAAATGTGACTGCGCATTATACGGACTTCCGGCGGTTATTcc               >  1:864854/1‑50 (MQ=255)

                                 tGAAACAAATGTGACTGCGCATTATACGGACTTCCGGCGGTTATTCCTAt            >  1:736992/1‑50 (MQ=255)

                                  gAAACAAATGTGACTGCGCATTATACGGACTTCCGGCGGTTATTCCTAt            <  1:1920340/49‑1 (MQ=255)

                                  gAAACAAATGTGACTGCGCATTATACGGACTTCCGGCGGTTATTCCTATc           >  1:1795175/1‑50 (MQ=255)

                                    aaCAAATGTGACTGCGCATTATACGGACTTCCGGCGGTTATTCCTATCCt         <  1:894596/50‑1 (MQ=255)

                                      cAAATGTGACTGCGCATTATACGGACTTCCGGCGGTTATTCCTATCCTGa       >  1:278917/1‑50 (MQ=255)

                                         aTGTGACTGCGCATTATACGGACTTCCGGCGGTTATTCCTATCCTGACaa    <  1:1787614/50‑1 (MQ=255)

                                         aTGTGACTGCGCATTATACGGACTTCCGGCGGTTATTCCTAACCTGAc      >  1:1723182/1‑48 (MQ=255)

                                           gtgACTGCGCATTATACGGACTTCCGGCGGTTATTCCTATCCTGACAAgg  >  1:834491/1‑50 (MQ=255)

CGGCCTGCTGGACGCATATTGAAATCTCCGGCTTGAAACAAATGTGGCTGCGCATTATACGGACTTCCGGCGGTTATTCCTATCCTGACAAGG  >  NC_000913/3816533‑3816625

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 20 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

N/A