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
A22 F999 I0 R1	108	38.1	2810592	98.4%	2765622	49.6

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,720,597	Δ1 bp	coding (4/153 nt)	hokA ←	small toxic polypeptide

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,720,596	0	G	.	100.0%	196.8 / NA	41	coding (5/153 nt)	hokA	small toxic polypeptide
Reads supporting (aligned to +/- strand): ref base G (0/0); new base . (20/21); total (20/21)

GCGTGAAACAAATCACTATTAAAGAAAGTAATCTATATTTCTGCGGCATTCCCAGCCTCCTGTGTTGATTTCCAACGAGTATGTACTG  >  NC_000913/3720552‑3720639

gCGTGAAACAAATCACTATTAAAGAAAGTAATCTATATTTCTGC‑GCATTc                                       >  1:1089671/1‑50 (MQ=255)

 cGTGAAACAAATCACTATTAAAGAAAGTAATCTATATTTCTGC‑GCATTcc                                      <  1:2128952/50‑1 (MQ=255)

 cGTGAAACAAATCACTATTAAAGAAAGTAATCTATATTTCTGC‑GCATTcc                                      >  1:2669022/1‑50 (MQ=255)

  gTGAAACAAATCACTATTAAAGAAAGTAATCTATATTTCTGC‑GCATTcc                                      >  1:1604021/1‑49 (MQ=39)

   tGAAATAAATCACTATTAAAGAAAGTAATCTATATTTCTGC‑GCATTCCCa                                    <  1:1845542/50‑1 (MQ=255)

     aaaCAAATCACTATTAAAGAAAGTAATCTATATTTCTGC‑GCATTCCCAg                                   <  1:904339/49‑1 (MQ=255)

     aaaCAAATCACTATTAAAGAAAGTAATCTATATTTCTGC‑GCATTCCCAGc                                  <  1:2416069/50‑1 (MQ=255)

     aaaCAAATCACTATTAAAGAAAGTAATCTATATTTCTGC‑GCATTCCCAGc                                  <  1:2034206/50‑1 (MQ=255)

     aaaCAAATCACTATTAAAGAAAGTAATCTATATTTCTGC‑GCATTCCCAGc                                  >  1:1578650/1‑50 (MQ=255)

      aaCAAATCACTATTAAAGAAAGTAATCTATATTTCTGC‑GCATTCCCAGcc                                 <  1:1606054/50‑1 (MQ=255)

        cAAATCACTATTAAAGAAAGTAATCTATATTTCTGC‑GCATTCCCAGcctc                               >  1:563818/1‑50 (MQ=255)

         aaaTCACTATTAAAGAAAGTAATCTATATTTCTGC‑GCATTCCCAGcctcc                              >  1:643598/1‑50 (MQ=255)

         aaaTCACTATTAAAGAAAGTAATCTATATTTCTGC‑GCATTCCCAGcctcc                              >  1:188273/1‑50 (MQ=255)

          aaTCACTATTAAAGAAAGTAATCTATATTTCTGC‑GCATTCCCAGcctcct                             <  1:910057/50‑1 (MQ=255)

          aaTCACTATTAAAGAAAGTAATCTATATTTCTGC‑GCATTCCCAGcctcct                             <  1:1500015/50‑1 (MQ=255)

           aTCACTATTAAAGAAAGTAATCTATATTTCTGC‑GCATTCCCAGCCTCCtg                            >  1:1461916/1‑50 (MQ=255)

              aCTATTAAAGAAAGTAATCTATATTTCTGC‑GCATTCCCAGCCTCCTgtgt                         >  1:1049089/1‑50 (MQ=255)

               cTATTAAAGAAAGTAATCTATATTTCTGC‑GCATTCCCAGCCTCCTGTGtt                        >  1:113789/1‑50 (MQ=255)

               cTATTAAAGAAAGTAATCTATATTTCTGC‑GCATTCCCAGCCTCCTGTGtt                        >  1:2182608/1‑50 (MQ=255)

                  ttAAAGAAAGTAATCTATATTTCTGC‑GCATTCCCAGCCTCCTGTGTTg                       <  1:1807315/48‑1 (MQ=255)

                  ttAAAGAAAGTAATCTATATTTCTGC‑GCATTCCCAGCCTCCTGTGTTGAt                     >  1:859301/1‑50 (MQ=255)

                  ttAAAGAAAGTAATCTATATTTCTGC‑GCATTCCCAGCCTCCTGTGTTGAt                     <  1:368991/50‑1 (MQ=255)

                   tAAAGAAAGTAATCTATATTTCTGC‑GCATTCCCAGCCTCCTGTGTTGAtt                    >  1:361744/1‑50 (MQ=255)

                     aagaaagTAATCTATATTTCTGC‑GCATTCCCAGCCTCCTGTGTTGAttt                   <  1:647515/49‑1 (MQ=255)

                     aagaaagTAATCTATATTTCTGC‑GCATTCCCAGCCTCCTGTGTTGAttt                   <  1:966935/49‑1 (MQ=255)

                     aagaaagTAATCTATATTTCTGC‑GCATTCCCAGCCTCCTGTGTTGATTTc                  >  1:2011535/1‑50 (MQ=255)

                     aagaaagTAATCTATATTTCTGC‑GCATTCCCAGCCTCCTGTGTTGATTTc                  >  1:2723155/1‑50 (MQ=255)

                       gaaagTAATCTATATTTCTGC‑GCATTCCCAGCCTCCTGTGTTGATTTCCa                <  1:123840/50‑1 (MQ=255)

                         aagTAATCTATATTTCTGC‑GCATTCCCAGCCTCCTGTGTTGATTTCCAAc              <  1:993438/50‑1 (MQ=255)

                         aagTAATCTATATTTCTGC‑GCATTCCCAGCCTCCTGTGTTGATTTCCAAc              <  1:192319/50‑1 (MQ=255)

                           gTAATCTATATTTCTGC‑GCATTCCCAGCCTCCTGTGTTGATTTCCAAc              >  1:1927268/1‑48 (MQ=255)

                           gTAATCTATATTTCTGC‑GCATTCCCAGCCTCCTGTGTTGATTTCCAACGa            <  1:332015/50‑1 (MQ=255)

                             aaTCTATATTTCTGC‑GCATTCCCAGCCTCCTGTGTTGATTTCCAACGAg           >  1:1536568/1‑49 (MQ=255)

                              aTCTATATTTCTGC‑GCATTCCCAGCCTCCTGTGTTGATTTCCAACGAGTa         <  1:986428/50‑1 (MQ=255)

                                cTATATTTCTGC‑GCATTCCCAGCCTCCTGTGTTGATTTCCAACGAGTAt        >  1:2267648/1‑49 (MQ=255)

                                   tatTTCTGC‑GCATTCCCAGCCTCCTGTGTTGATTTCCAACGAGTATaact    <  1:1225591‑M1/50‑5 (MQ=255)

                                   tatTTCTGC‑GCATTCCCAGCCTCCTGTGTTGATTTCCAACGAGTATaac     <  1:785277‑M1/49‑4 (MQ=255)

                                   tatTTCTGC‑GCATTCCCAGCCTCCTGTGTTGATTTCCAACGAGTATaa      <  1:470432‑M1/48‑3 (MQ=255)

                                     tttCTGC‑GCATTCCCAGCCTCCTGTGTTGATTTCCAACGAGTATaacttt  <  1:1585772‑M1/50‑7 (MQ=255)

                                      ttCTGC‑GCATTCCCAGCCTCCTGTGTTGATTTCCAACGAGTATaacttt  >  1:2793089‑M1/1‑43 (MQ=255)

                                      ttCTGC‑GCATTCCCAGCCTCCTGTGTTGATTTCCAACGAGTATaacttt  >  1:2038540‑M1/1‑43 (MQ=255)

GCGTGAAACAAATCACTATTAAAGAAAGTAATCTATATTTCTGCGGCATTCCCAGCCTCCTGTGTTGATTTCCAACGAGTATGTACTG  >  NC_000913/3720552‑3720639

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

N/A