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
A15 F177 I1 R2	35	38.3	831348	95.5%	793937	139.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	2,342,380	A→C	L78V (TTG→GTG)	USA300HOU_2199 ←	possible HAD superfamily hydrolase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	2,342,380	0	A	C	100.0%	102.3 / NA	29	L78V (TTG→GTG)	USA300HOU_2199	possible HAD superfamily hydrolase
Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (14/15); total (14/15)

GACATTATATTGCGCAGAAATATGACGTAATATATCTTCAATATCTTCAAATAAAAATGGTTCGCTCAAGACTTTCTTTTTATATGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCAAATCAGAAAAGATATGTAATGGTTTAAACGTCATATTAACTTGATCCATTTTATCCATGACACTTTGAAATGTACTTCCTGTCAATACAGCAGTGATCACTTCATTATTATTAGTTAGTTTTTCCAACAATT  >  CP000730/2342243‑2342511

gACATTATATTGCGCAGAAATATGACGTAATATATCTTCAATATCTTCAAATAAAAATGGTTCGCTCAAGACTTTCTTTTTATATGTGTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATc                                                                                                                                  >  1:278053/1‑141 (MQ=255)

    ttATATTGCGCAGAAATATGACGTAATATATCTTCAATATCTTCAAATAAAAATGGTTCGCTCAAGACTTTCTTTTTATATGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGaa                                                                                                                              >  2:271600/1‑141 (MQ=255)

     tataTTGCGCAGAAATATGACGTAATATATCTTCAATATCTTCAAATAAAAATGGTTCGCTCAAGACTTTCTTTTTATATGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGaaa                                                                                                                             <  2:84510/141‑1 (MQ=255)

      atatTGCGCAGAAATATGACGTAATATATCTTCAATATCTTCAAATAAAAATGGTTCGCTCAAGACTTTCTTTTTATATGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGaaaa                                                                                                                            >  1:167430/1‑141 (MQ=255)

            cgcAGAAATATGACGTAATATATCTTCAATATCTTCAAATAAAAATGGTTCGCTCAAGACTTTCTTTTTATATGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGAAAAGATATg                                                                                                                      >  2:48338/1‑141 (MQ=255)

             gcAGAAATATGACGTAATATATCTTCAATATCTTCAAATAAAAATGGTTCGCTCAAGACTTTCTTTTTATATGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGAAAAGATATGt                                                                                                                     >  2:185503/1‑141 (MQ=255)

                 aaaTATGACGTAATATATCTTCAATATCTTCAAATAAAAATGGTTCGCTCAAGACTTTCTTTTTATATGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGAAAAGATATGTAATg                                                                                                                 <  1:262454/141‑1 (MQ=255)

                     atGACGTAATATATCTTCAATATCTTCAAATAAAAATGGTTCGCTCAAGACTTTCTTTTTATATGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGAAAAGATATGTAATGGttt                                                                                                             >  2:88367/1‑141 (MQ=255)

                        aCGTAATATATCTTCAATATCTTCAAATAAAAATGGTTCGCTCAAGACTTTCTTTTTATATGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGGAAAGATATGTAATGGTTTaaa                                                                                                          >  1:331874/1‑141 (MQ=255)

                        aCGTAATATATCTTCAATATCTTCAAATAAAAATGGTTCGCTCAAGACTTTCTTTTTATAGGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGAAAAGATATGTAATGGTTTaaa                                                                                                          <  2:136538/141‑1 (MQ=255)

                          gTAATATATCTTCAATATCTTCAAATAAAAATGGTTCGCTCAAGACTTTCTTTTTATATGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTATAACTCACATCAGAAAAGATATGTAAATGTTTAAACg                                                                                                        >  2:187052/1‑141 (MQ=255)

                             atatatCTTCAATATCTTCAAATAAAAATGGTTCGCTCAAGACTTTCTTTTTATATGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGAAAAGATATGTAATGGTTTAAACGTCa                                                                                                     <  2:86326/141‑1 (MQ=255)

                                     tcaatatcttcaaATAAAAATGGTTCGCTCAATACTTTCTTTTTATATGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGAAAAGATATGTAATGGTTTAAACGTCATATTAACt                                                                                             <  2:380921/141‑1 (MQ=255)

                                        atatcttcaaCTAAAAATGGTTCGCTCAAGACTTTCTTTTTATATGTTACTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGAAAAGATATGTAATGGTTTAAACGTCATATTAACTTGa                                                                                          >  2:99938/1‑141 (MQ=255)

                                             ttcaaATAAAAATGGTTCGCTCAAGACTTTCTTTTTATATGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCACAAAAGCTATGACATGGTTTAAACGTCATATTAACTTGATCCAt                                                                                     <  2:121556/141‑1 (MQ=255)

                                                    aaaaaTGGTTCGCTCAAGACTTTCTTTTTATATGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGAAAAGATATGTAATGGTTTAAACGTCATATTAACTTGATCCATTTTATcc                                                                              >  2:192531/1‑141 (MQ=255)

                                                      aaaTGGTTCGCTCAAGACTTTCTTTTTATATGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGAAAAGATATGTAATGGTTTAAACGTCATATTAACTTGATCCATTTTATCCAt                                                                            >  1:154436/1‑141 (MQ=255)

                                                        aTGGTTCTCTCAAGACTTTCTTTTTATATGTTTATGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGACCTCACATCAGAAAAGATATGTAATGGTTTAAACGTCATATTAACTTGATCCATTTTATCCATGa                                                                          <  2:313103/141‑1 (MQ=255)

                                                                          tctttTTATATGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGAAAAGATATGTAATGGTTTAAACGTCATATTAACTTGATCCATTTTATCCATGACACTTTGAAATGTACTTc                                                        <  2:344928/141‑1 (MQ=255)

                                                                            tttttATATGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGAAAAGATATGTAATGGTTTAAACGTCATATTAACTTGATCCATTTTATCCATGACACTTTGAAATGTACTTCCt                                                      >  1:14014/1‑141 (MQ=255)

                                                                              tttATATGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGAAAAGATATGTAATGGTTTAAACGTCATATTAACTTGATCCATTTTATCCATGACACTTTGAAATGTACTTCCTGt                                                    <  2:62601/141‑1 (MQ=255)

                                                                                          tttacgatcATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGAAAAGATATGTAATGGTTTAAACGTCATATTAACTTGATCCATTTTATCCATGACACTTTGAAATGTACTTCCTGTCAATACAGCAGt                                        <  2:210319/133‑1 (MQ=255)

                                                                                           taTTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGAAAAGATATGTAATGGTTTAAACGTCATATTAACTTGATCCATTTTATCCATGACACTTTGAAATGTACTTCCTGTCAATACAGCAGTg                                       <  1:156502/140‑1 (MQ=255)

                                                                                              tCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGAAAAGATATGTAATGGTTTAAACGTCATATTAACTTGATCCATTTTATCCATGACACTTTGAAATGTACTTCCTGTCAATACAGCAGTGATc                                    <  1:66195/141‑1 (MQ=255)

                                                                                                    tatTCGCCATTATTCCAAGTGAACATTTTAGAACTCACATCAGAAAAGATATGTAATGGTTTAAACGTCATATTAACTTGATCCATTTTATCCATGACACTTTGAAATGTACTTCCTGTCAATACAGCAGTGATCACTTCa                              <  1:218086/141‑1 (MQ=255)

                                                                                                                  ccAAGTGAACATTTTAGAACTCACATCAGAAAAGATATGTAATGGTTTAAACGTCATATTAACTTGATCCATTTTATCCATGACACTTTGAAATGTACTTCCTGTCAATACAGCAGTGATCACTTCATTATTAttagttag                >  2:203486/1‑141 (MQ=255)

                                                                                                                           cATTTTAGAACTCACATCAGAAAAGATATGTAATGGTTTAAACGTCATATTAACTTGATCCATTTTATCCATGACACTTTGAAATGTACTTCCTGTCAATACAGCAGTGATCACTTCATTATTATTAGTTAGTTTTTCcaa       <  2:222020/141‑1 (MQ=255)

                                                                                                                            aTTTTAGAACTCACATCAGAAAAGATATGTAATGGTTTAAACGTCATATTAACTTGATCCATTTTATCCATGACACTTTGAAATGTACTTCCTGTCAATACAGCAGTGATCACTTCATTATTATTAGTTAGTTTTTCcaac      >  2:402676/1‑141 (MQ=255)

                                                                                                                                tAGAACTCACATCAGAAAAGATATGTAATGGTTTAAACGTCATATTAACTTGATCCATTTTATCCATGACACTTTGAAATGTACTTCCTGTCAATACAGCAGTGATCACTTCATTATTATTAGTTAGTTTTTCCAACAAtt  <  2:251615/141‑1 (MQ=255)

GACATTATATTGCGCAGAAATATGACGTAATATATCTTCAATATCTTCAAATAAAAATGGTTCGCTCAAGACTTTCTTTTTATATGTTTCTGATTCAACATATTCGCCATTATTCCAAGTGAACATTTTAGAACTCAAATCAGAAAAGATATGTAATGGTTTAAACGTCATATTAACTTGATCCATTTTATCCATGACACTTTGAAATGTACTTCCTGTCAATACAGCAGTGATCACTTCATTATTATTAGTTAGTTTTTCCAACAATT  >  CP000730/2342243‑2342511

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