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
A2 F1 I0 R1	4577	57.4	3436498	77.7%	2670158	63.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	1,515,092	A→G	73.4%	L133L (CTT→CTC)	purF ←	amidophosphoribosyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,515,092	0	A	G	73.4%	62.9 / 19.1	56	L133L (CTT→CTC)	purF	amidophosphoribosyltransferase
Reads supporting (aligned to +/- strand): ref base A (10/5); new base G (6/35); total (16/40)
Fisher's exact test for biased strand distribution p-value = 3.50e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.88e-01

AGTGGCGGAAGTTGTCCAGCTCGCTGGCGAAGATATTAAGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTGGCGGCGTTTTTCTTCAAACAGTTTTTTACGCAA  >  minE/1515055‑1515160

aGTGGCGGAAGTTGTCCAGCTCGCTGGCGAAGATATTAAGCAGAATTTCCGAGTCGGAAGTGGTGTTGa                                       <  1:365576/69‑1 (MQ=255)

aGTGGCGGAAGTTGTCCAGCTCGCTGGCGAAGATATTAAGCAGAATTTCCGAGTCGGAAGTGGTGTTGa                                       <  1:176064/69‑1 (MQ=255)

aGTGGCGGAAGGTGTCCAGCTCGCTGGCGAAGATATTAAGCAGAATTTCCGAGTCGGAAGTGGTGTTGa                                       <  1:495147/69‑1 (MQ=255)

 gTGGCGGAAGTTGTCCAGCTCGCTGGCGAAGATATTAAGCAGAATTTCCGAGTCGGAAGTGGTGTTGa                                       <  1:2167487/68‑1 (MQ=255)

 gTGGCGGAAGTTGTCCAGCTCGCTGGCGAAGATATTAAGCAGAATTTCCGAGTCGGAAGTGGTGTTGa                                       <  1:2142539/68‑1 (MQ=255)

   ggCGGAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:2282202/68‑1 (MQ=255)

   ggCGGAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:2344193/68‑1 (MQ=255)

   ggCGGAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:126527/68‑1 (MQ=255)

   ggCGGAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:1885209/68‑1 (MQ=255)

   ggCGGAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:24598/68‑1 (MQ=255)

   ggCGGAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:2561580/68‑1 (MQ=255)

   ggCGGAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:3066869/68‑1 (MQ=255)

   ggCGGAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:1626131/68‑1 (MQ=255)

    gCGGAAGTTGTCCAGCTCGCTGGCGAAGATATTAAGCAGAATTTCCGAGTCGGAAgt                                               >  1:10641/1‑57 (MQ=255)

    gCGGAAGTTGTCCAGCTCGCTGGCGAAGATATTAAGCAGAATTTCCGAGTCGGAAGTGGTGTTGa                                       >  1:2983261/1‑65 (MQ=255)

    gCGGAAGTTGTCCAGCTCGCTGGCGAAGATATTAAGCAGAATTTCCGAGTCGGAAGTGGTGTTGa                                       >  1:1566859/1‑65 (MQ=255)

    gCGGAAGTTGTCCAGCTCGCTGGCGAAGATATTAAGCAGAATTTCCGAGTCGGAAGTGGTGTTGa                                       >  1:1271811/1‑65 (MQ=255)

    gCGGAAGTTGTCCAGCTCGCTGGCGAAGATATTAAGCAGAATTTCCGAGTCGGAAGTGGTGTTGa                                       >  1:1239033/1‑65 (MQ=255)

    gCGGAAGTTGTCCAGCTCGCTGGCGAAGATATTAAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtgtg                                   >  1:2544573/1‑69 (MQ=255)

    gCGGAAGTTGTCCAGCTCGCTGGCGAAGATATTAAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtgtg                                   >  1:1428367/1‑69 (MQ=255)

    gCGGAAGTTGTCCAGCTCGCTGGCGAAGATATTAAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtgtg                                   >  1:236374/1‑69 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:2888177/65‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:2567625/65‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:3173778/65‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:3229136/65‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:3299601/65‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:2448392/65‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:964651/65‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:2203646/65‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:1171863/65‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:1264711/65‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:1504802/65‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:1804484/65‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:1846310/65‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:2172000/65‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:1882832/65‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:2191977/65‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTggc                                 >  1:25598/1‑69 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTggc                                 >  1:597161/1‑69 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTggc                                 >  1:164612/1‑69 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTgg                                  <  1:2220680/68‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTgg                                  <  1:783440/68‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTgg                                  <  1:398712/68‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTgg                                  <  1:2319720/68‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTgg                                  <  1:1371423/68‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTgg                                  <  1:3040862/68‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTgg                                  >  1:2813559/1‑68 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTgg                                  >  1:2717476/1‑68 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTgg                                  <  1:2567770/68‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTgg                                  <  1:1803357/68‑1 (MQ=255)

      ggAAGTTGTCCAGTTCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTgg                                  >  1:2565512/1‑68 (MQ=255)

            tGTCCAGCTCGCTGGCGAAGATATTAAGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTGGCGGCGtt                           >  1:3154759/1‑69 (MQ=255)

                    tCGCTTGCGAAAATATTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTgg                                  <  1:1339525/54‑1 (MQ=255)

                                atatTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTTATGTgg                                  <  1:3095706/42‑1 (MQ=38)

                                 tatTGAGCAGAATTTCCGAGTCGGAAGTGGTGTTGAtg                                     <  1:124408/38‑1 (MQ=255)

                                  atTAAGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTGGCGGCGTTTTTCTTCAAACAGTTTTTTAc      >  1:1716081/1‑68 (MQ=255)

                                     aaGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTGGCGGCGTTTTTCTTCAAACAGTTTTTTACGc    >  1:2180315/1‑67 (MQ=255)

                                     aaGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTGGCGGCGTTTTTCTTCAAACAGTTTTTTACGCaa  >  1:3060195/1‑69 (MQ=255)

                                     aaGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTGGCGGCGTTTTTCTTCAAACAGTTTTTTACGCa   >  1:1558826/1‑68 (MQ=255)

AGTGGCGGAAGTTGTCCAGCTCGCTGGCGAAGATATTAAGCAGAATTTCCGAGTCGGAAGTGGTGTTGATGTGGCGGCGTTTTTCTTCAAACAGTTTTTTACGCAA  >  minE/1515055‑1515160

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A