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 F1 I1 R1	66	20.9	912876	97.7%	891879	114.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,160,278	G→A	S171S (AGC→AGT)	sthA ←	pyridine nucleotide transhydrogenase, soluble

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,160,278	0	G	A	100.0%	83.9 / NA	25	S171S (AGC→AGT)	sthA	pyridine nucleotide transhydrogenase, soluble
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (13/12); total (13/12)

ATCGAGAAATGCCAGCAGGCGATCGCGGGTGTTGATCAGATCCACTTTTACATCCATACCGCGGAAGATCGACGCATATTCACAGCCGATCACTCCAGCACCATAGATAAGTACATGGCGCGGTTCGTGGTGCATGCTGAGAATTGAGTCGCTGTCGTAAATGCGTGGATGGGTGAAATCAACATCTGTTGGATGATATGGACGAGAGCCGCAGGCAATAACAAATTTTTCAGCGGTTAGTGTTTCAACGCTGCCGTCCG  >  NC_000913/4160143‑4160402

aTCGAGAAATGCCAGCAGGCGATCGCGGGTGTTGATCAGATCCACTTTTACATCCATACCGCGGAAGATCGACGCATATTCACAGCCGATCACTCCAGCACCATAGATAAGTACATGGCGCGGTTCGTGGTGCATACTg                                                                                                                           >  1:354313/1‑139 (MQ=255)

          gCCAGCAGGCGATCGCGGGTGTTGATCAGATCCACTTTTACATCCATACCGCGGAAGATCGACGCATATTCACAGCCGATCACTCCAGCACCATAGATAAGTACATGGCGCGGTTCGTGGTGCATACTGAGAATTGAGt                                                                                                                 <  1:124113/139‑1 (MQ=255)

           ccAGCAGGCGATCGCGGGTGTTGATCAGATCCACTTTTACATCCATACCGCGGAAGATCGACGCATATTCACAGCCGATCACTCCAGCACCATAGATAAGTACATGGCGCGGTTCGTGGTGCATACTGAGAATTGAGTc                                                                                                                <  2:221658/139‑1 (MQ=255)

               cagGCGATCGCGGGTGTTGATCAGATCCACTTTTACATCCATACCGCGGAAGATCGACGCATATTCACAGCCGATCACTCCAGCACCATAGATAAGTACATGGCGCGGTTCGTGGTGCATACTGAGAATTGAGTCGCTg                                                                                                            <  2:82291/139‑1 (MQ=255)

                                                    tCCATACCGCGGAAGATCGACGCATATTCACAGCCGATCACTCCAGCACCATAGATAAGTACATGGCGCGGTTCGTGGTGCATACTGAGAATTGAGTCGCTGTCGTAAATGCGTGGATGGGTGAAATCAACATCTGTTg                                                                       <  2:354313/139‑1 (MQ=255)

                                                       aTACCGCGGAAGATCGACGCATATTCACAGCCGATCACTCCAGCACCATAGATAAGTACATGGCGCGGTTCGTGGTGCATACTGAGAATTGAGTc                                                                                                                >  1:254248/1‑95 (MQ=255)

                                                       aTACCGCGGAAGATCGACGCATATTCACAGCCGATCACTCCAGCACCATAGATAAGTACATGGCGCGGTTCGTGGTGCATACTGAGAATTGAGTc                                                                                                                <  2:254248/95‑1 (MQ=255)

                                                       aTACCGCGGAAGATCGACGCATATTCACAGCCGATCACTCCAGCACCATAGATAAGTACATGGCGCGGTTCGTGGTGCATACTGAGAATTGAGTCGCTGTCGTAAATGCGTGGATGGGTGAAATCAACATCTGTTGgat                                                                    >  2:111010/1‑139 (MQ=255)

                                                       aTACCGCGGAAGATCGACGCATATTCACAGCCGATCACTCCAGCACCATAGATAAGTACATGGCGCGGTTCGTGGTGCATACTGAGAATTGAGTCGCTGTCGTAAATGCGTGGATGGGTGAAATCAACATCTGTTGgat                                                                    >  2:371099/1‑139 (MQ=255)

                                                       aTACCGCGGAAGATCGACGCATATTCACAGCCGATCACTCCAGCACCATAGATAAGTACATGGCGCGGTTCGTGGTGCATACTGAGAATTGAGTCGCTGTCGTAAATGCGTGGATGGGTGAAATCAACATCTGTTGgat                                                                    >  1:201030/1‑139 (MQ=255)

                                                                                     ccGATCACTCCAGCACCATAGATAAGTACATGGCGCGGTTCGTGGTGCATACTGAGAATTGAGTGGCTGTCGTAAATGCGTGGATGGGTGAAATCAAc                                                                               >  1:245719/1‑98 (MQ=255)

                                                                                     ccGATCACTCCAGCACCATAGATAAGTACATGGCGCGGTTCGTGGTGCATACTGAGAATTGAGTCGCTGTCGTAAATGCGTGGATGGGTGAAATCAAc                                                                               <  2:245719/98‑1 (MQ=255)

                                                                                        aTCACTCCAGCACCATAGATAAGTACATGGCGCGGTTCGTGGTGCATACTGAGAATTGAGTCGc                                                                                                              <  1:242168/64‑1 (MQ=255)

                                                                                        aTCACTCCAGCACCATAGATAAGTACATGGCGCGGTTCGTGGTGCATACTGAGAATTGAGTCGc                                                                                                              >  2:242168/1‑64 (MQ=255)

                                                                                        aTCACTCCAGCACCATAGATAAGTACATGGCGCGGTTCGTGGTGCATACTGAGAATTGAGTCGCTGTCGTAAATGCGTGGATGGGTGAAATCAACATCTGTTGga                                                                     <  1:449429/105‑1 (MQ=255)

                                                                                        aTCACTCCAGCACCATAGATAAGTACATGGCGCGGTTCGTGGTGCATACTGAGAATTGAGTCGCTGTCGTAAATGCGTGGATGGGTGAAATCAACATCTGTTGga                                                                     >  2:449429/1‑105 (MQ=255)

                                                                                        aTCACTCCAGCACCATAGATAAGTACATGGCGCGGTTCGTGGTGCATACTGAGAATTGAGTCGCTGTCGTAAATGCGTGGATGGGTGAAATCAACATCTGTTGGATGATATGGACGAGAGCCGCAGGCAATAACAAAtt                                   >  2:248039/1‑139 (MQ=255)

                                                                                                                 cATGGCGCGGTTCGTGGTGCATACTGAGAATTGAGTCGCTGTCGTAAATGCGTGGATGGGTGAAATCAACATCTGTTGGATGATATGGACGAGAGCCGCAGGCAATAACAAATTTTTCAGCGGTTAGTGTTTCAACGCt          <  1:248039/139‑1 (MQ=255)

                                                                                                                    ggCGCGGTTCGTGGTGCATACTGAGAATTGAGTCGCTGTCGTAAATGCGTGGATGGGTGAAATCAACATCTGTTGga                                                                     <  1:394214/77‑1 (MQ=255)

                                                                                                                    ggCGCGGTTCGTGGTGCATACTGAGAATTGAGTCGCTGTCGTAAATGCGTGGATGGGTGAAATCAACATCTGTTGga                                                                     >  2:394214/1‑77 (MQ=255)

                                                                                                                      cgcgGTTCGTGGTGCATACTGAGAATTGAGTCGCTGTCGTAAATGCGTGGATGGGTGAAATc                                                                                  <  2:163383/62‑1 (MQ=255)

                                                                                                                      cgcgGTTCGTGGTGCATACTGAGAATTGAGTCGCTGTCGTAAATGCGTGGATGGGTGAAATc                                                                                  >  1:163383/1‑62 (MQ=255)

                                                                                                                        cgGTTCGTGGTGCATACTGAGAATTGAGTCGCTGTCGTAAATGCGTGGATGGGTGAAATCAACATCTGTTGga                                                                     >  2:21081/1‑73 (MQ=255)

                                                                                                                        cgGTTCGTGGTGCATACTGAGAATTGAGTCGCTGTCGTAAATGCGTGGATGGGTGAAATCAACATCTGTTGga                                                                     <  1:21081/73‑1 (MQ=255)

                                                                                                                         ggTTCGTGGTGCATACTGAGAATTGAGTCGCTGTCGTAAATGCGTGGATGGGTGAAATCAACATCTGTTGGATGATATGGACGAGAGCCGCAGGCAATAACAAATTTTTCAGCGGTTAGTGTTTCAACGCTGCCGTCCg  >  2:193036/1‑139 (MQ=255)

ATCGAGAAATGCCAGCAGGCGATCGCGGGTGTTGATCAGATCCACTTTTACATCCATACCGCGGAAGATCGACGCATATTCACAGCCGATCACTCCAGCACCATAGATAAGTACATGGCGCGGTTCGTGGTGCATGCTGAGAATTGAGTCGCTGTCGTAAATGCGTGGATGGGTGAAATCAACATCTGTTGGATGATATGGACGAGAGCCGCAGGCAATAACAAATTTTTCAGCGGTTAGTGTTTCAACGCTGCCGTCCG  >  NC_000913/4160143‑4160402

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `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