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
A1 F28 I2 R1	330	0.0	2544031	91.9%	2337964	62.1

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	W3110S.gb	2,757,239	(T)_6→7	coding (18/957 nt)	yfjH ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	2,757,233	1	.	T	80.0%	46.8 / 8.9	20	coding (24/957 nt)	yfjH	hypothetical protein
Reads supporting (aligned to +/- strand): ref base . (1/3); new base T (0/16); total (1/19)
Fisher's exact test for biased strand distribution p-value = 2.00e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.75e-01

GTAAAAATTGTATTTTTGGTACATGGG‑TTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTGAACCA > W3110S.gb/2757207‑2757283

gTAAAAATTGTATTTTTGGTACATGGG‑TTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCaa               >  1:250410/1‑64 (MQ=255)

       ttGTATTTTTGGTACATGGG‑TTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTg       <  1:1850807/65‑1 (MQ=255)

        tGTATTTTTGGTACATGGG‑TTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTg       <  1:520155/64‑1 (MQ=255)

        tGTATTTTTGGTACATGGG‑TTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTg       <  1:1035823/64‑1 (MQ=255)

              tttGGTACATGGGTTTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTGAACCa  <  1:2395413/64‑1 (MQ=255)

              tttGGTACATGGGTTTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTGAACCa  <  1:878068/64‑1 (MQ=255)

              tttGGTACATGGGTTTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTGAACCa  <  1:667827/64‑1 (MQ=255)

              tttGGTACATGGGTTTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTGAACCa  <  1:617253/64‑1 (MQ=255)

              tttGGTACATGGGTTTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTGAACCa  <  1:571329/64‑1 (MQ=255)

              tttGGTACATGGGTTTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTGAACCa  <  1:408622/64‑1 (MQ=255)

              tttGGTACATGGGTTTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTGAACCa  <  1:389280/64‑1 (MQ=255)

              tttGGTACATGGGTTTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTGAACCa  <  1:2528760/64‑1 (MQ=255)

              tttGGTACATGGGTTTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTGAACCa  <  1:2324782/64‑1 (MQ=255)

              tttGGTACATGGGTTTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTGAACCa  <  1:2223613/64‑1 (MQ=255)

              tttGGTACATGGGTTTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTGAACCa  <  1:2213671/64‑1 (MQ=255)

              tttGGTACATGGGTTTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTGAACCa  <  1:2141940/64‑1 (MQ=255)

              tttGGTACATGGGTTTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTGAACCa  <  1:2045718/64‑1 (MQ=255)

              tttGGTACATGGGTTTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTGAACCa  <  1:1997840/64‑1 (MQ=255)

              tttGGTACATGGGTTTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTGAACCa  <  1:1942705/64‑1 (MQ=255)

                 ggTACATGGGTTTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTGAACCa  <  1:1453769/61‑1 (MQ=255)

GTAAAAATTGTATTTTTGGTACATGGG‑TTTTTTGCCTTAAAGATACCCATTAATCTCTCTGCAACCAAAGTGAACCA > W3110S.gb/2757207‑2757283

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

N/A