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
A4 F1 I1 R1	765	39.6	1867486	94.4%	1762906	108.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	854,765	G→A	373 (TAG→TAA)	ybiR →	putative transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	854,765	0	G	A	100.0%	98.3 / NA	31	373 (TAG→TAA)	ybiR	putative transporter
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (16/15); total (16/15)

GGTGGCGTTTCCATCTCTATTCAATACCGATGCTGTTGTGGGCGGCGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAGGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGACGAACCGGCATCCCGGAGCGGTTTTTAATCGCTTCATCAAGAACAACCTGGTCAACATCTGGCTGAC  >  NC_000913/854677‑854900

ggtggCGTTTCCATCTCTATTCAATACCGATGCTGTTGTGGGCGGCGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGt                                                                                       >  2:449800/1‑139 (MQ=255)

                 tATTCAATACCGATGCTGCTGTGGGCGGCGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAg                                                                      <  2:193493/139‑1 (MQ=255)

                   ttCAATACCGATGCTGTTGTGGGCGGCGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGAc                                                                    >  2:931229/1‑139 (MQ=255)

                   ttCAATACCGATGCTGTTGTGGGCGGCGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGAc                                                                    >  2:764782/1‑139 (MQ=255)

                             aTGCTGTTGTGGGCGGCGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCg                                                                                                                   <  2:637866/82‑1 (MQ=255)

                             aTGCTGTTGTGGGCGGCGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCg                                                                                                                   >  1:637866/1‑82 (MQ=255)

                             aTGCTGTTGTGGGCGGCGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCttt                                                                                           <  2:784160/106‑1 (MQ=255)

                             aTGCTGTTGTGGGCGGCGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCttt                                                                                           >  1:784160/1‑106 (MQ=255)

                             aTGCTGTTGTGGGCGGCGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTc                                                                        <  1:37580/125‑1 (MQ=255)

                             aTGCTGTTGTGGGCGGCGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTc                                                                        >  2:37580/1‑125 (MQ=255)

                             aTGCTGTTGTGGGCGGCGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGACGAACCGGCAt                                                          >  1:331895/1‑139 (MQ=255)

                             aTGCTGTTGTGGGCGGCGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGACGAACCGGCAt                                                          >  2:579455/1‑139 (MQ=255)

                             aTGCTGTTGTGGGCGGCGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGACCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGACGAACCgg                                                             >  1:819301/1‑136 (MQ=255)

                             aTGCTGTTGTGGGCGGCGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGACCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGACGAACCgg                                                             <  2:819301/136‑1 (MQ=255)

                                    tgtgGGCGGCGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGACGAACCGGCATCCCGGAg                                                   <  2:844502/139‑1 (MQ=255)

                                    tgtgGGCGGCGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGACGAACCGGCATCCCGGAg                                                   <  2:331895/139‑1 (MQ=255)

                                        ggcggcGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGa                                                                               >  1:538099/1‑107 (MQ=255)

                                        ggcggcGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGa                                                                               <  2:538099/107‑1 (MQ=255)

                                           ggcgTTGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGACGAACCGGCATCCCGGAGCGGtttt                                            >  1:410325/1‑139 (MQ=255)

                                               ttGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGa                                                                     >  1:9840/1‑110 (MQ=255)

                                               ttGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGa                                                                     <  2:9840/110‑1 (MQ=255)

                                                   tggGATATGTTTTGTTAGTTATACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGACGAACCGGCATCCCGGAGCGGTTTTTAATCGCt                                    <  2:410325/139‑1 (MQ=255)

                                                                     ttaTACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAgg                                                                                                                     <  1:376793/40‑1 (MQ=255)

                                                                     ttaTACTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAgg                                                                                                                     >  2:376793/1‑40 (MQ=39)

                                                                          cTCCCGGCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGACGAACCGGCATCCCGGAGCGGTTTTTAATCGCTTCATCAAGAACAACCTGGTCAAc             <  1:449800/139‑1 (MQ=255)

                                                                               ggCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGACGAAc                                                                >  2:43014/1‑83 (MQ=255)

                                                                               ggCCAACTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGACGAAc                                                                <  1:43014/83‑1 (MQ=255)

                                                                                    aCTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGACGAACCGGCATCCCGGAg                                                   >  1:156513/1‑91 (MQ=255)

                                                                                    aCTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGACGAACCGGCATCCCGGAg                                                   <  2:156513/91‑1 (MQ=255)

                                                                                    aCTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGACGAACCGGCATCCCGGAGCGGTTTTTAATCGCTTCATCAAGAACAACCTGGTCAACATCTGGCTGa   >  1:557136/1‑139 (MQ=255)

                                                                                    aCTAAGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCC‑TTTGCTTTAAGTTTTGAAGATTAATTCAGACGAACCGGCATCCCGGAGCGGTTTTTAATCGCTTCATCAAGAACAACCTGGTCAACATCTGGCTGAc  <  1:342166/139‑1 (MQ=255)

GGTGGCGTTTCCATCTCTATTCAATACCGATGCTGTTGTGGGCGGCGTTGGTGGGATATGTTTTGTTAGTTATACTCCCGGCCAACTAGGGTCTGGCAAATAAAAAAGGCGGATTATGAGTCCGCCTTTTGCTTTAAGTTTTGAAGATTAATTCAGACGAACCGGCATCCCGGAGCGGTTTTTAATCGCTTCATCAAGAACAACCTGGTCAACATCTGGCTGAC  >  NC_000913/854677‑854900

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A