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
A19 F18 I1 R1	11	50.9	1137152	97.8%	1112134	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	1,646,189	G→C	A155G (GCA→GGA)	ypdF ←	Aminopeptidase YpdF

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	1,646,189	0	G	C	97.7%	161.8 / ‑5.8	43	A155G (GCA→GGA)	ypdF	Aminopeptidase YpdF
Reads supporting (aligned to +/- strand): ref base G (0/0); major base C (27/15); minor base A (1/0); total (28/15)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01

ATTTTATCACTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTGCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGATAT  >  USA300TCH1516_ALE/1646051‑1646322

atTTTATCACTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGcctcct                                                                                                                                      >  1:341032/1‑141 (MQ=255)

      tCACTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTaca                                                                                                                                >  2:246802/1‑141 (MQ=255)

                  ccATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAata                                                                                                                    >  1:559666/1‑141 (MQ=255)

                    aTGTGGTAATGCACCTCTATGACCAGATGTTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAatata                                                                                                                  <  2:84529/141‑1 (MQ=255)

                     tgtgGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAatatat                                                                                                                 >  1:448953/1‑141 (MQ=255)

                     tgtgGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAatatat                                                                                                                 >  1:277779/1‑141 (MQ=255)

                                   tctATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTtcatc                                                                                                  >  2:269344/1‑141 (MQ=255)

                                     tATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATcaa                                                                                                >  1:460729/1‑141 (MQ=255)

                                       tGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATcaaca                                                                                              >  2:466888/1‑141 (MQ=255)

                                       tGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATcaaca                                                                                              >  2:552664/1‑141 (MQ=255)

                                         aCCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAat                                                                                            <  2:370904/141‑1 (MQ=255)

                                          ccAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAata                                                                                           <  2:341032/141‑1 (MQ=255)

                                               tGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCTTA‑TGTTTCATCAACAATATTAgc                                                                                      <  1:246802/141‑1 (MQ=255)

                                                gCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAgct                                                                                     >  2:351378/1‑141 (MQ=255)

                                                gCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAgct                                                                                     >  2:137941/1‑141 (MQ=255)

                                                gCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAgct                                                                                     >  2:530634/1‑141 (MQ=255)

                                                 cTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACACCAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAgctg                                                                                    <  1:468452/141‑1 (MQ=255)

                                                            tCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAAtt                                                                         <  1:19670/141‑1 (MQ=255)

                                                            tCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAAtt                                                                         <  1:246603/141‑1 (MQ=255)

                                                             cGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTa                                                                        >  2:549704/1‑141 (MQ=255)

                                                             cGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTa                                                                        >  1:300249/1‑141 (MQ=255)

                                                                    tgGTCCATCTGCTCCTAATTCTAGCATTTTGCTGTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAAt                                                                 >  1:295268/1‑141 (MQ=255)

                                                                    tgGTCCATCTGATCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTAAGTCATGGATATTTTTAGAACAGTTAAAATATATTAATA‑TGTTTCATAAAAAATATTAGCTGATTTTTGAATTAAAGAAAt                                                                 >  1:425394/1‑141 (MQ=255)

                                                                          aTCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTc                                                           <  1:532047/141‑1 (MQ=255)

                                                                          aTCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTc                                                           <  2:219521/141‑1 (MQ=255)

                                                                          aTCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTc                                                           <  1:498190/141‑1 (MQ=255)

                                                                                  cTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCtt                                                   <  2:37070/141‑1 (MQ=255)

                                                                                    aaTTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTg                                                 >  1:90952/1‑141 (MQ=255)

                                                                                                 tGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAAttt                                    >  1:270509/1‑141 (MQ=255)

                                                                                                          atatTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAg                           <  2:508677/141‑1 (MQ=255)

                                                                                                             ttGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTAt                        <  1:443756/141‑1 (MQ=255)

                                                                                                             ttGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTAt                        <  2:359718/141‑1 (MQ=255)

                                                                                                             ttGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATT‑ATACTGGTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTCTCTACAGTAt                        >  1:297657/1‑141 (MQ=255)

                                                                                                               gCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTa                      >  1:235609/1‑141 (MQ=255)

                                                                                                                ccTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAg                     >  1:490258/1‑141 (MQ=255)

                                                                                                                ccTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAg                     >  2:394395/1‑141 (MQ=255)

                                                                                                                     aaTTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATg                >  1:324584/1‑141 (MQ=255)

                                                                                                                       ttCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCt              >  1:485523/1‑141 (MQ=255)

                                                                                                                          tttttCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCttat           >  2:376328/1‑141 (MQ=255)

                                                                                                                          tttttCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCttat           >  1:323402/1‑141 (MQ=255)

                                                                                                                              tCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAAt       >  1:321132/1‑141 (MQ=255)

                                                                                                                               cAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATg      <  1:269344/141‑1 (MQ=255)

                                                                                                                                aGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGa     >  2:540328/1‑141 (MQ=255)

                                                                                                                                   cATGCCTCCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGatat  >  1:173437/1‑141 (MQ=255)

ATTTTATCACTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTGCTTTTACAACAGTTAAAATATATTCATA‑TGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGATAT  >  USA300TCH1516_ALE/1646051‑1646322

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A