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
A5 F43 I1 R1	9	18.9	431162	94.5%	407448	140.9

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	100.0%	45.0 / NA	17	A155G (GCA→GGA)	ypdF	Aminopeptidase YpdF
Reads supporting (aligned to +/- strand): ref base G (0/0); new base C (6/11); total (6/11)

ATTTTATCACTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTGCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGATATACG  >  USA300TCH1516_ALE/1646051‑1646325

atTTTATCACTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGcctcct                                                                                                                                        >  2:143971/1‑141 (MQ=255)

   ttATCACTTGCAACACCATGTGTTAATTCACTTCTTTGACCGGTTGTTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTTGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCtttt                                                                                                                                     <  2:75238/141‑1 (MQ=255)

     aTCACTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTac                                                                                                                                   >  1:58972/1‑141 (MQ=255)

      tCACTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATACTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTaca                                                                                                                                  >  1:187015/1‑141 (MQ=255)

                       tgGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTCGCATTTTACTGTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTc                                                                                                                 >  1:157820/1‑141 (MQ=255)

                       tgGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTTAGTCATTCCTCCTTTTACAACAGTTAAAATATATTc                                                                                                                 <  2:176075/141‑1 (MQ=255)

                                   tctATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTtcatc                                                                                                     <  2:58972/141‑1 (MQ=255)

                                      ttcacttgATTCTACAATCGTATCGAATGATTGTCCATCTTCTTCTAATTCTATCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATTTCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATcaac                                                                                                  <  2:120386/134‑1 (MQ=255)

                                               ggCTACACTCGTATCGACTCATGGTCCATCTGCTCCTAACTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTCTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAgc                                                                                         <  1:185474/140‑1 (MQ=255)

                                                                gtgttgGTCCAGCGGCGCCTAATTCTAGCAGGTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCGTTTACAACGGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAg                                                                        <  2:74214/137‑1 (MQ=255)

                                                                     ggTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAAtt                                                                   <  1:20415/141‑1 (MQ=255)

                                                                     ggTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAAtt                                                                   <  1:147248/141‑1 (MQ=255)

                                                                                    aaTTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTg                                                    <  1:143971/141‑1 (MQ=255)

                                                                                      ttCTAGCATTTTGCTTGCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGAc                                                  <  2:29750/141‑1 (MQ=255)

                                                                                                   cTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACTACAGTTAAAATATATTCATATGTTTCATCAACAATATTATCTGCTTTTTGAATTAAAGTAATTTCGTCAGCATCTTTGACGTATCTATTTTTa                                     >  2:66117/1‑141 (MQ=255)

                                                                                                              tGCCTTTAATTCTTTTTCAGTCATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTAtt                          >  2:199212/1‑141 (MQ=255)

                                                                                                                                   cATGCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGatat     >  1:199506/1‑141 (MQ=255)

                                                                                                                                      gCCTCCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGATATACg  <  1:182779/141‑1 (MQ=255)

ATTTTATCACTTGCAACACCATGTGGTAATGCACCTCTATGACCAGATGCTACAATCGTATCGAATGATGGTCCATCTGCTCCTAATTCTAGCATTTTGCTTTCTAATATTGCCTTTAATTCTTTTTCAGTCATGCCTGCTTTTACAACAGTTAAAATATATTCATATGTTTCATCAACAATATTAGCTGCTTTTTGAATTAAAGCAATTTCGTCAGCATCTTTGACGTCTCTAATTTTATCTACAGTATTAGAAATGCTTATTAATGATATACG  >  USA300TCH1516_ALE/1646051‑1646325

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A