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
A28 F999 I0 R1	113	27.6	2102982	97.5%	2050407	48.6

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%	97.8 / NA	25	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 (12/13); total (12/13)

CGGCCTGCTGGACGCATATTGAAATCTCCGGCTTGAAACAAATGTGGCTGCGCATTATACGGACTTCCGGCGGTTATTCCTATCCTGA  >  NC_000913/3816533‑3816620

cGGCCTGCTGGACGCATATTGAAATCTCCGGCTTGAAACAAATGTGACt                                         <  1:720382/49‑1 (MQ=255)

 ggCCTGCTGGACGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTg                                        <  1:1281121/49‑1 (MQ=255)

  gCCTGCTGGACGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTgc                                       >  1:1425165/1‑49 (MQ=255)

   ccTGCTGGACGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTgcg                                      <  1:1981485/49‑1 (MQ=255)

       ctgGACGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCa                                    <  1:144268/47‑1 (MQ=255)

       ctgGACGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCa                                    <  1:1947953/47‑1 (MQ=255)

       ctgGACGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCAt                                   >  1:1765343/1‑48 (MQ=255)

        tgGACGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATta                                 >  1:1608402/1‑49 (MQ=255)

        tgGACGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATta                                 >  1:1926321/1‑49 (MQ=255)

         ggACGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATta                                 >  1:151542/1‑48 (MQ=255)

          gACGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATtat                                <  1:1092559/48‑1 (MQ=255)

           aCGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATTATAc                              <  1:575478/49‑1 (MQ=255)

           aCGCATATTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATTATAc                              <  1:31956/49‑1 (MQ=255)

                tatTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATTATACGGACt                         >  1:1443015/1‑49 (MQ=255)

                 atTGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATTATACGGACtt                        >  1:1942372/1‑49 (MQ=255)

                  ttGAAATCTCCGGCTTGAAACAAATGTGACTGCGCATTATACGGACtt                        <  1:77299/48‑1 (MQ=255)

                      aaTCTCCGGCTTGAAACAAATGTGACTGCGCATTATACGGACTTCcggc                   >  1:1764810/1‑49 (MQ=255)

                          tcCGGCTTGAAACAAATGTGACTGCGCATTATACGGACTTCCGGCGGt                >  1:1586297/1‑48 (MQ=255)

                            cGGCTTGAAACAAATGTGACTGCGCATTATACGGACTTCcggcgg                 <  1:1709019/45‑1 (MQ=255)

                            cGGCTTGAAACAAATGTGACTGCGCATTATACGGACTTCCGGCGGTTAt             >  1:120185/1‑49 (MQ=255)

                             ggCTTGAAACAAATGTGACTGCGCATTATACGGACTTCCGGCGGTTAtt            <  1:450662/49‑1 (MQ=255)

                                      cAAATGTGACTGCGCATTATACGGACTTCCGGCGGTTATTCCTATCCt    >  1:707690/1‑48 (MQ=255)

                                       aaaTGTGACTGCGCATTATACGGACTTCCGGCGGTTATTCCTATCCTGa  <  1:443344/49‑1 (MQ=255)

                                       aaaTGTGACTGCGCATTATACGGACTTCCGGCGGTTATTCCTATCCTGa  <  1:1599863/49‑1 (MQ=255)

                                        aaTGTGACTGCGCATTATACGGACTTCCGGCGGTTATTCCTATCCTGa  >  1:2024322/1‑48 (MQ=255)

CGGCCTGCTGGACGCATATTGAAATCTCCGGCTTGAAACAAATGTGGCTGCGCATTATACGGACTTCCGGCGGTTATTCCTATCCTGA  >  NC_000913/3816533‑3816620

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

N/A