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
A1 F169 I1 R1	62	44.4	970160	98.1%	951726	147.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	USA300TCH1516_ALE	1,830,883	C→T	K79K (AAG→AAA)	ezrA ←	Septation ring formation regulator EzrA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	1,830,883	0	C	T	100.0%	91.3 / NA	26	K79K (AAG→AAA)	ezrA	Septation ring formation regulator EzrA
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (10/16); total (10/16)

ATCTTCTAATTGTTGCTGATAGCTTTGTTCGTAACTATCCATCAACTCATTTGCATCATCAATTTCACTTTGAGATGCGTTGAAACTAAATTTATCTAATAAAGCCTCAGCATTATGGATTTTTTCTTCCACAGGAGCTAGATACTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCTTTTAAATTCAACTTAGATAATTGTGCAAGGTTTTGATCAAAAGGTAACGTCTCAATTTCATTTTTACGTTCGATTGCTTTTTC  >  USA300TCH1516_ALE/1830739‑1831026

aTCTTCTAATTGTTGCTGATAGCTTTGTTCGTAACTATCCATCAACTCATTTGCATCATCAATTTCACTTTGAGATGCGTTGAAACTAAATTTATCTAATAAAGCCTCAGCATTATGGATTTTTTCTTCCACAGGAGCTAGATATTTa                                                                                                                                              >  3:349108/1‑148 (MQ=255)

      tAATTGTTGCTGATAGCTTTGTTCGTAACTATCCATCAACTCATTTGCATCATCAATTTCACTTTGAGATGCGTTGAAACTAAATTTATCTAATAAAGCCTCAGCATTATGGATTTTTTCTTCCACAGGAGCTAGATATTTATTTGTa                                                                                                                                        <  3:152539/148‑1 (MQ=255)

      tAATTGTTGCTGATAGCTTTGTTCGTAACTATCCATCAACTCATTTGCATCATCAATTTCACTTTGAGATGCGTTGAAACTAAATTTATCTAATAAAGCCTCAGCATTATGGATTTTTTCTTCCACAGGAGCTAGATATTTATTTGTa                                                                                                                                        <  3:230616/148‑1 (MQ=255)

                                                   tGCATCATCAATTTCACTTTGAGATGCGTTGAAACTAAATTTATCTAATAAAGCCTCAGCATTATGGATTTTTTCTTCCACAGGAGCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGt                                                                                                  >  1:4207/1‑141 (MQ=255)

                                                          tcaATTTCACTTTGAGATGCGTTGAAACTAAATTTATCTAATAAAGCCTCAGCATTATGGATTTTTTCTTCCACAGGAGCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCtt                                                                                    <  3:14461/148‑1 (MQ=255)

                                                           caATTTCACTTTGAGATGCGTTGAAACTAAATTTATCTAATAAAGCCTCAGCATTATGGATTTTTTCTTCCACAGGAGCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCttt                                                                                   <  4:250382/148‑1 (MQ=255)

                                                            aaTTTCACTTTGAGATGCGTTGAAACTAAATTTATCTAATAAAGCCTCAGCATTATGGATTTTTTCTTCCACAGGAGCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCtttt                                                                                  >  3:249929/1‑148 (MQ=255)

                                                                  aCTTTGAGATGCGTTGAAACTAAATTTATCTAATAAAGCCTCAGCATTATGGATTTTTTCTTCCACAGGAGCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCTTTTAAATTc                                                                            <  3:49601/148‑1 (MQ=255)

                                                                     ttGAGATGCGTTGAAACTAAATTTATCTAATAAAGCCTCAGCATGATGGATTTTTTCTTCCACAGGAGCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCtttgta                                                                                >  1:59847/1‑138 (MQ=255)

                                                                      tGAGATGCGTTGAAACTAAATTTATCTAATAAAGCCTCAGCATTATGGATTTTTTCTTCCACAGGAGCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCTTTTAAATTCAACt                                                                        <  4:221301/148‑1 (MQ=255)

                                                                                                  ataaAGCCTCAGCATTATGGATTTTTTCTTCCACAGGAGCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCTTTTAAATTCAACTTAGATAATTGTGCAAGGTTTTGATCaaa                                            <  3:51356/148‑1 (MQ=255)

                                                                                                   taaAGCCTCAGCATTATGGATTTTTTCTTCCACAGGAGCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCTTTTAAATTCAACTTAGATAATTGTGCAAGGTTTTGATCaaaa                                           >  3:74595/1‑148 (MQ=255)

                                                                                                    aaaGCCTCAGCATTATGGATTTTTTCTTCCACAGGAGCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCTTTGCATTGTATTTCGTTTTTGTTTCACCTTTTAAATTCAACTTAGATAATTGTGCAAGGTTTTGATCAAAAg                                          >  4:56281/1‑148 (MQ=255)

                                                                                                    aaaGCCTCAGCATTATGGATTTTTTCTTCCACAGGAGCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCTTTTAAATTCAACTTAGATAATTGTGCAAGGTTTTGATCAAAAg                                          >  4:401200/1‑148 (MQ=255)

                                                                                                    aaaGCCTCAGCATTATGGATTTTTTCTTCCACAGGAGCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCATTTAAATTCAACTTAGATAATTGTGCAAGGTTTTGATCAAAAg                                          >  3:223478/1‑148 (MQ=255)

                                                                                                         cTCAGCATTATGGATTTTTTCTTCCACAGGAGCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCTTTTAAATTCAACTTAGATAATTGTGCAAGGTTTTGATCAAAAGGTAAc                                     <  3:293584/148‑1 (MQ=255)

                                                                                                           cAGCATTATGGATTTTTTCTTCCACAGGAGCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCTTTTAAATTCAACTTAGATAATTGTGCAAGGTTTTGATCAAAAg                                          >  1:56185/1‑141 (MQ=255)

                                                                                                             gCATTATGGATTTTTTCTTCCACAGGAGCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCTTTTAAATTCAACTTAGATAATTGTGCAAGGTTTTGATCAAAAGGTAACGtct                                 <  4:214624/148‑1 (MQ=255)

                                                                                                                     gggtttttCTTCCTCAGTAGCTAGATATTGAGGTTTACGGTCTACTTTGTCCTTTGTCAGTGCATCGTAGTTCGTTTTTGTGTCACCTTTTAAATTCAACTTAGATAATTGTGCAAGGTTTTGATCAAAAGGTAACGTCTCAATTTCa                         <  3:331345/145‑1 (MQ=255)

                                                                                                                        tttttCTTCCACAGGAGCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCTTTTAAATTCAACTTAGATAATTGTGCAAGGTTTTGATCAAAAGGTAACGTCTCAATTTCAttt                      <  4:249929/148‑1 (MQ=255)

                                                                                                                                 cacaGGAGCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCTTTTAAATTCAACTTAGATAATTGTGCAAGGTTTTGATCAAAAGGTAACGTCTCAATTTCATTTTTACGTTCg             <  4:298933/148‑1 (MQ=255)

                                                                                                                                    aGGAGCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCTTTTAAATTCAACTTAGATAATTGTGCAAGGTTTTGATCAAAAGGTAACGTCTCAATTTCATTTTTACGTTCGAtt          <  3:159445/148‑1 (MQ=255)

                                                                                                                                    aGGAGCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCTTTTAAATTCAACTTAGATAATTGTGCAAGGTTTTGATCAAAAGGTAACGTCTCAATTTCATTTTTACGTTCGAtt          <  3:148220/148‑1 (MQ=255)

                                                                                                                                        gCTAGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCTTTTAAATTCAACTTAGATAATTGTGCAAGGTTTTGATCAAAAGGTAACGTCTCAATTTCATTTTTACGTTCGATTGCtt      <  3:223090/148‑1 (MQ=255)

                                                                                                                                           aGATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCTCCTTTTAAATTCAACTTAGATAATTGTGCACGGTTTTGATCAAAAGGTAACGTGTCAATTTCATTTTTACTTTCGATTGCttttt   >  4:110996/1‑148 (MQ=255)

                                                                                                                                            gATATTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCTTTTAAATTCAACTTAGATAATTGTGCAAGGTTTTGATCAAAAGGTAACGTCTCAATTTCATTTTTACGTTCGATTGCTTTTTc  <  4:140216/148‑1 (MQ=255)

ATCTTCTAATTGTTGCTGATAGCTTTGTTCGTAACTATCCATCAACTCATTTGCATCATCAATTTCACTTTGAGATGCGTTGAAACTAAATTTATCTAATAAAGCCTCAGCATTATGGATTTTTTCTTCCACAGGAGCTAGATACTTATTTGTACTTTCTACGTTGTCCTTTTTCATTGCATCGTATTTCGTTTTTGTTTCACCTTTTAAATTCAACTTAGATAATTGTGCAAGGTTTTGATCAAAAGGTAACGTCTCAATTTCATTTTTACGTTCGATTGCTTTTTC  >  USA300TCH1516_ALE/1830739‑1831026

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

GATK/CNVnator alignment

N/A