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 F1 I1 R1	81	47.9	2225048	94.8%	2109345	113.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	600,470	C→T	A586V (GCG→GTG)	cusA →	copper/silver efflux system, membrane component

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	600,470	0	C	T	100.0%	79.9 / NA	24	A586V (GCG→GTG)	cusA	copper/silver efflux system, membrane component
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (12/12); total (12/12)

TTCGGTGCTGACGGTTCTCTGGCCGCTCAATAAAGTTGGCGGGGAATTTTTACCGCAGATCAATGAAGGCGACTTGTTGTATATGCCATCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGCGAGTATGCTGCAAAAAACCGACAAGCTAATTATGAGCGTACCTGAAGTGGCGCGGGTATTTGGCAAAACCGGGAAAGCGGAAACCGCCACCGATTCTGCTCCGCTGGAGATGGTAGAAACG  >  NC_000913/600348‑600591

ttCGGTGCTGACGGTTCTCTGGCCGCTCAATAAAGTTGGCGGGGAATTTTTAACGCAGATCAATGAAGGCGACTTGTTGTATATGCCATCGACGCTGCCGGGGATTTCCTCAGCAGAGGCGGTGAGTATGCTGCaaaaa                                                                                                           >  2:750200/1‑139 (MQ=255)

     tGCTGACGGTTCTCTGGCCGCTCAATAAAGTTGGCGGGGAATTTTTACCGCAGATCAATGAAGGCGACTTGTTGTATATGCCATCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCAAAAAACCGa                                                                                                      <  2:897019/139‑1 (MQ=255)

                 tctGGCCGCTCAATAAAGTTGGCGGGGAATTTTTACCGCAGATCAATGAAGGCGACTTGTTGTATATGCCATCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCAAAAAACCGACAAGCTAATTAt                                                                                          <  1:1021605/139‑1 (MQ=255)

                    ggCCGCTCAATAAAGTTGGCGGGGAATTTTTACCGCAGATCAATGAAGGCGACTTGTTGTATATGCCATCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCAAAAAACCGACAAGCTAATTATGAg                                                                                       <  2:235917/139‑1 (MQ=255)

                    ggCCGCTCAATAAAGTTGGCGGGGAATTTTTACCGCAGATCAATGAAGGCGACTTGTTGTATATGCCATCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCAAAAAACCAACAAGCTAATTATGAg                                                                                       <  1:485173/139‑1 (MQ=255)

                       cGCTCAATAAAGTTGGCGGGGAATTTTTACCGCAGATCAATGAAGGCGACTTGTTGTATATGCCATCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCAAAAAACCGACAAGCTAATTATGAGCGt                                                                                    >  1:398195/1‑139 (MQ=255)

                         cTCAATAAAGTTGGCGGGGAATTTTTACCGCAGATCAATGAAGGCGACTTGTTGTATATGCCATCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCAAAAAACCGACAAg                                                                                                  >  1:278047/1‑123 (MQ=255)

                         cTCAATAAAGTTGGCGGGGAATTTTTACCGCAGATCAATGAAGGCGACTTGTTGTATATGCCATCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCAAAAAACCGACAAg                                                                                                  <  2:278047/123‑1 (MQ=255)

                          tCAATAAAGTTGGCGGGGAATTTTTACCGCAGATCAATGAAGGCGACTTGTTGTATATGCCATCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCAAAAAACCGACAAGCTAATTATGAGCGTAcc                                                                                 >  1:954381/1‑139 (MQ=255)

                               aaaGTTGGCGGGGAATTTTTACGTCAGATCAATGAAGGCGACTTGTTGTATATGCCATCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCAAAAAACCGACAAGCTAATTATGAGCGTACCTGAAg                                                                            <  1:291526/139‑1 (MQ=255)

                                                                         ttgttgTATATGCCATCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCAAAAAACCGACAAGCTAATTATGAGCGTACCTGAAGTGGCGCGGGTATTTGGCAAAACCGGGAAAGCGGAAACCGCCa                                  >  2:466450/1‑139 (MQ=255)

                                                                                 tatGCCATCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCa                                                                                                               >  1:721344/1‑54 (MQ=255)

                                                                                 tatGCCATCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCa                                                                                                               <  2:721344/54‑1 (MQ=255)

                                                                                    gCCATCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCAAAAAACCGACAAGCTAATTATGAGCGTACCTGAAGGGGCGCGGGTATTTGGCAAAACCGGGAAAGCGGAAACCGCCACCGATTCTGCt                       >  2:735336/1‑139 (MQ=255)

                                                                                      cATCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCAAAAAACCGa                                                                                                      >  1:598161/1‑58 (MQ=255)

                                                                                      cATCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCAAAAAACCGa                                                                                                      <  2:598161/58‑1 (MQ=255)

                                                                                      cATCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCAAAAAACCGACAAGCt                                                                                                <  2:528664/64‑1 (MQ=255)

                                                                                      cATCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCAAAAAACCGACAAGCt                                                                                                >  1:528664/1‑64 (MQ=255)

                                                                                        tCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCAAAAAACCGACAAGCTAATTATGAGCGTACCTGAAGTGGCGCGGGTATTTGGCAAAACCGGGAAAGCGGAAACCGCCACCGATTCTGCTCCGc                   >  2:847571/1‑139 (MQ=255)

                                                                                         cGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGt                                                                                                                       >  1:691427/1‑38 (MQ=255)

                                                                                         cGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGt                                                                                                                       <  2:691427/38‑1 (MQ=255)

                                                                                         cGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCAAAAAACCGACAAGCTAATTATGAGCGTACCTGAAGTGGCGCGGGTATTTGGCAAAACCGGGAAAGCGGAAACCGCCACCGATTCTGCTCCGCt                  <  2:954381/139‑1 (MQ=255)

                                                                                            cGCTGCCGGGGATTTCCGCAGCAGAGGCGGTGAGTATGCTGCAAAAAACCGACAAGCTAATTATGAGCGTACCTGAAGTGGCGCGGGTATTTGGCAAAACCGGGAAAGCGGAAACCGCCACCGATTCTGCTCCGCTGga               <  1:466450/139‑1 (MQ=255)

                                                                                                         ttCCGCAGCAGAGGCGGTGAGTATGCTGCAAAAAACCGACAAGCTAATTATGAGCGTACCTGAAGTGGCGCGGGTATTTGGCAAAACCGGGAAAGCGGAAACCGCCACCGATTCTGCTCCGCTGGAGATGGTAGAAACg  >  1:615881/1‑139 (MQ=255)

                                                                                                                      gcggtgAGTATGCTGCAAAAAACCGACAAGCTAATTATGAGCGTACCTGAAGTGGCGCGGGTATTTGGCAAAACCGGGAAAGCGGAAAcc                                      <  2:1010466/90‑1 (MQ=255)

                                                                                                                      gcggtgAGTATGCTGCAAAAAACCGACAAGCTAATTATGAGCGTACCTGAAGTGGCGCGGGTATTTGGCAAAACCGGGAAAGCGGAAAcc                                      >  1:1010466/1‑90 (MQ=255)

TTCGGTGCTGACGGTTCTCTGGCCGCTCAATAAAGTTGGCGGGGAATTTTTACCGCAGATCAATGAAGGCGACTTGTTGTATATGCCATCGACGCTGCCGGGGATTTCCGCAGCAGAGGCGGCGAGTATGCTGCAAAAAACCGACAAGCTAATTATGAGCGTACCTGAAGTGGCGCGGGTATTTGGCAAAACCGGGAAAGCGGAAACCGCCACCGATTCTGCTCCGCTGGAGATGGTAGAAACG  >  NC_000913/600348‑600591

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A