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
A11 F28 I1 R1	134	60.5	2175152	94.0%	2044642	138.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	553,146	A→G	intergenic (‑46/+72)	purE ← / ← lpxH	N(5)‑carboxyaminoimidazole ribonucleotide mutase/UDP‑2,3‑diacylglucosamine diphosphatase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	553,146	0	A	G	100.0%	113.1 / NA	33	intergenic (‑46/+72)	purE/lpxH	N(5)‑carboxyaminoimidazole ribonucleotide mutase/UDP‑2,3‑diacylglucosamine diphosphatase
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (23/10); total (23/10)

TTCGGCGGCGAACTGCATGGTAGCCCAGTCGCTTTTGGACCCCATCACGATGGCGACACGCGCCGGATTATTGCGGGAAGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCACAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATGAATCAGCTCAACGTCATCCGCCGTGACTTTCACCATTGAACCTTCCGTAT  >  NC_000913/553017‑553282

ttCGGCGGCGAACTGCATGGTAGCCCAGTCGCTTTTGGACCCCATCACGATGGCGACACGCGCCGGATTATTGCGGGAAGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAg                                                                                                                                >  1:889230/1‑140 (MQ=255)

  cggcggCGAACTGCATGGTAGCCCAGTCGCTTTTGGACCCCATCACGATGGCGACACGCGCCGGATTATTGCGGGAAGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCa                                                                                                                              <  2:889230/140‑1 (MQ=255)

        cgAACTGCATGGTAGCCCAGTCGCTTTTGGACCCCATCACGATGGCGACACGCGCCGGATTATTGCGGGAAGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAgaga                                                                                                                                    >  2:857784/1‑128 (MQ=255)

        cgAACTGCATGGTAGCCCAGTCGCTTTTGGACCCCATCACGATGGCGACACGCGCCGGATTATTGCGGGAAGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAgaga                                                                                                                                    <  1:857784/128‑1 (MQ=255)

          aaCTGCATGGTAGCCCAGTCGCTTTTGGACCCCATCACGATGGCGACACGCGCCGGATTATTGCGGGAAGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGcgca                                                                                                                                        >  2:368068/1‑122 (MQ=255)

                    tAGCCCAGTCGCTTTTGGACCCCATCACGATGGCGACACGCGCCGGATTATTGCGGGAAGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGaa                                                                                                            >  1:1049332/1‑140 (MQ=255)

                       cccAGTCGCTTTTGGACCCCATCACGATGGCGACACGCGCCGGATTATTGCGGGAAGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAAc                                                                                                         >  2:1015639/1‑140 (MQ=255)

                          aGTCGCTTTTGGACCCCATCACGATGGCGACACGCGCCGGATTATTGCGGGAAGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGt                                                                                                      >  2:694686/1‑140 (MQ=255)

                            tCGCTTTTGGACCCCATCACGATGGCGACACGCGCCGGATTATTGCGGGAAGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTg                                                                                                    >  1:783066/1‑140 (MQ=255)

                              gCTTTTGGACCCCATCACGATGGCGACACGCGCCGGATTATTGCGGGAAGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCg                                                                                                  >  2:296338/1‑140 (MQ=255)

                                 tttGGACCCCATCACGATGGCGACACGCGCCGGATTATTGCGGGAAGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGaaa                                                                                                           >  2:42789/1‑128 (MQ=255)

                                 tttGGACCCCATCACGATGGCGACACGCGCCGGATTATTGCGGGAAGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGaaa                                                                                                           <  1:42789/128‑1 (MQ=255)

                                        cccATCACGATGGCGACACGCGCCGGATTATTGCGGGAAGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGaa                                                                                        >  1:354534/1‑140 (MQ=255)

                                            tCACGATGGCGACACGCGCCGGATTATTGCGGGAAGACATGCGTCTTAAAACTCTTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTg                                                                                                <  2:944276/128‑1 (MQ=255)

                                            tCACGATGGCGACACGCGCCGGATTATTGCGGGAAGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTg                                                                                                >  1:944276/1‑128 (MQ=255)

                                                                     attGCGGGAAGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACg                                                           <  1:694686/140‑1 (MQ=255)

                                                                            gAAGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATg                                                    >  1:196686/1‑140 (MQ=255)

                                                                            gAAGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATg                                                    >  1:572128/1‑140 (MQ=255)

                                                                              aGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATGaa                                                  >  2:280605/1‑140 (MQ=255)

                                                                               gACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATGAAt                                                 <  2:783066/140‑1 (MQ=255)

                                                                                        cTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATGAATCAGCTCAAc                                        >  2:522176/1‑140 (MQ=255)

                                                                                          tAAAACTCCTGTGGCGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATGAATCAGCTCAACGt                                      >  2:491680/1‑140 (MQ=255)

                                                                                                  cTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATGAATCAGCTCAACGTCATccgcc                              >  2:344262/1‑140 (MQ=255)

                                                                                                  cTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATGAATCAGCTCAACGTCATccgcc                              >  1:683162/1‑140 (MQ=255)

                                                                                                  cTGTGGTGCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATGAATCAGCTCAACGTCATccgcc                              >  1:6376/1‑140 (MQ=255)

                                                                                                     tggtgCACAACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATGAATCAGCTCAACGTCATCCGCCGTg                           >  2:699461/1‑140 (MQ=255)

                                                                                                          cacaACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATGAATCAGCTCAACGTCATCCGCCGTGACttt                      <  1:280605/140‑1 (MQ=255)

                                                                                                          cacaACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATGAATCAGCTCAACGTCATCCGCCGTGACttt                      >  2:924561/1‑140 (MQ=255)

                                                                                                          cacaACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATGAATCAGCTCAACGTCATCCGCCGTGACttt                      <  1:344262/140‑1 (MQ=255)

                                                                                                          cacaACTCTCGGCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATGAATCAGCTCAACGTCATCCGCCGTGACttt                      >  1:348188/1‑140 (MQ=255)

                                                                                                                    ggCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATGAATCAGCTCAACGTCATCCGCCGTGACTTTCACCATTGaa            >  2:611475/1‑140 (MQ=255)

                                                                                                                    ggCTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATGAATCAGCTCAACGTCATCCGCCGTGACTTTCACCATTGaa            >  2:274032/1‑140 (MQ=255)

                                                                                                                      cTTTAGAGGGCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATGAATCAGCTCAACGTCATCCGCCGTGACTTTCACCATTGAAcc          <  2:683162/140‑1 (MQ=255)

                                                                                                                              ggCGCAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATGAATCAGCTCAACGTCATCCGCCGTGACTTTCACCATTGAACCTTCCGTAt  <  2:1049332/140‑1 (MQ=255)

TTCGGCGGCGAACTGCATGGTAGCCCAGTCGCTTTTGGACCCCATCACGATGGCGACACGCGCCGGATTATTGCGGGAAGACATGCGTCTTAAAACTCCTGTGGTGCACAACTCTCGGCTTTAGAGGGCACAGAGAATAGCACGGAAAGAGAGCAAGGAAAACGGTTGCGTGGCTGTGAAATCAGCAAAGTTGCGGGTTTTTTAAAACGGAAAATGAATCAGCTCAACGTCATCCGCCGTGACTTTCACCATTGAACCTTCCGTAT  >  NC_000913/553017‑553282

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A