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
A2 F28 I3 R2	122	64.1	3058059	97.6%	2984665	63.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	minE	2,802,519	T→A	D196V (GAT→GTT)	qor ←	quinone oxidoreductase, NADPH‑dependent

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	2,802,519	0	T	A	100.0%	155.6 / NA	54	D196V (GAT→GTT)	qor	quinone oxidoreductase, NADPH‑dependent
Reads supporting (aligned to +/- strand): ref base T (0/0); new base A (27/27); total (27/27)

TGCCCACGGAATCGTACACCACGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCTTTTAGCGCGCTCTGCGCTTTTTGC  >  minE/2802451‑2802581

tGCCCACGGAATCGTACACCACGCGCACTTTCTTACCGCCGGTGATCTCTTTTAA‑CACTCGACCAGAACct                                                             >  1:834588/1‑71 (MQ=255)

       ggAATCGTACACCACGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCAc                                                       >  1:1290654/1‑71 (MQ=255)

       ggAATCGTACACCACGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCAc                                                       >  1:522034/1‑71 (MQ=255)

         aaTCGTACACCACGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGa                                                     <  1:2359961/71‑1 (MQ=255)

         aaTCGTACACCACGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGa                                                     >  1:2922496/1‑71 (MQ=255)

          aTCGTACACCACGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGAt                                                    <  1:285976/71‑1 (MQ=255)

                  ccacGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTtaata                                            <  1:1683507/71‑1 (MQ=255)

                   cacGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTtaataa                                           >  1:587306/1‑71 (MQ=255)

                     cgcgCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAAc                                          >  1:181467/1‑70 (MQ=255)

                        gcACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTg                                       <  1:2878467/70‑1 (MQ=255)

                        gcACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGc                                      <  1:1074139/71‑1 (MQ=255)

                        gcACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGc                                      <  1:1279053/71‑1 (MQ=255)

                          aCTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCa                                    >  1:1228244/1‑71 (MQ=255)

                          aCTTTCTTACCGCAGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTtaata                                            >  1:2360339/1‑63 (MQ=255)

                            tttCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACg                                                      >  1:1788268/1‑51 (MQ=255)

                            tttCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATa                                                   <  1:2985518/54‑1 (MQ=255)

                            tttCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCa                                    >  1:715328/1‑69 (MQ=255)

                            tttCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCAcg                                  >  1:2303293/1‑71 (MQ=255)

                              tCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAAc                                          >  1:1796624/1‑61 (MQ=255)

                               cTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTtaata                                            >  1:1548946/1‑58 (MQ=255)

                                 tACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTc                                                         >  1:2915919/1‑43 (MQ=255)

                                 tACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTc                                                         >  1:1620451/1‑43 (MQ=255)

                                 tACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTc                                                         >  1:1477434/1‑43 (MQ=255)

                                 tACCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGcc                              >  1:295123/1‑70 (MQ=255)

                                  aCCGCCGGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGccc                             <  1:685770/70‑1 (MQ=255)

                                     gccgGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCtt                         <  1:739870/71‑1 (MQ=255)

                                      ccgGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCttt                        >  1:1206170/1‑71 (MQ=255)

                                      ccgGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCttt                        <  1:1404865/71‑1 (MQ=255)

                                       cgGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCtttt                       <  1:2354559/71‑1 (MQ=255)

                                       cgGTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCtttt                       <  1:2642948/71‑1 (MQ=255)

                                         gTGATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGc                           <  1:1364317/65‑1 (MQ=255)

                                           gATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCt                          <  1:53025/64‑1 (MQ=255)

                                           gATCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCTTTTAgcg                   >  1:253877/1‑71 (MQ=255)

                                            aTCTCTTTTAACCGCTCGACCAGAACCTCTTCACGAt                                                    <  1:1938390/37‑1 (MQ=255)

                                            aTCTCTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCTTTTAgcgc                  >  1:1745628/1‑71 (MQ=255)

                                             tctcTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGcc                                     <  1:3013856/51‑1 (MQ=255)

                                             tctcTTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCTTTTAgcgc                  >  1:1783513/1‑70 (MQ=255)

                                             tctcTTTTAACCGCTCAACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCTTTTAgcgcg                 >  1:2762021/1‑71 (MQ=255)

                                              ctctTTTAACCGCTCGACCAGAACCTCTTCACGAt                                                    <  1:2017572/35‑1 (MQ=255)

                                              ctctTTTAACCGCTCGACCAGAACCTCTTCACGATAGTtaataa                                           <  1:1080161/44‑1 (MQ=255)

                                              ctctTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCTTTTAgcgcgc                >  1:2765281/1‑71 (MQ=255)

                                              ctctTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCTTTTAgcgcgc                >  1:1762641/1‑71 (MQ=255)

                                               tctTTTAAACGCTCGACCAGAACCTCTTCACGATAGTtaata                                            <  1:1453576/42‑1 (MQ=38)

                                                ctTTTAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCt                                        >  1:2640615/1‑45 (MQ=255)

                                                   ttAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCTCCCGCTTTTAGCGCGctct             <  1:655209/69‑1 (MQ=255)

                                                   ttAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCTTTTAGCGCGctct             <  1:2751274/69‑1 (MQ=255)

                                                   ttAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCTTTTAGCGCGCTCTgc           >  1:2234482/1‑71 (MQ=255)

                                                   ttAACCGCTCGACCAGAACCTCTTCACGATAGTTAATAACATGCCAc                                   >  1:2445344/1‑47 (MQ=255)

                                                      aCCGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCTTTTAGCGCGCTCTGCGCt        <  1:85187/71‑1 (MQ=255)

                                                        cGCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCTTTTAGCGCGCTCTGCGCttt      <  1:1652730/71‑1 (MQ=255)

                                                         gCTCGACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCTTTTAGCGCGCTCTGCGCttt      <  1:2541801/70‑1 (MQ=255)

                                                             gACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCTTTTAGCGCGCTCTGCGCTTTTTgc  <  1:500483/70‑1 (MQ=255)

                                                             gACCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCTTTTAGCGCGCTCTGCGCTTTTTg   <  1:2301534/69‑1 (MQ=255)

                                                              aCCAGAACCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCTTTTa                      <  1:220161/49‑1 (MQ=255)

TGCCCACGGAATCGTACACCACGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCACGATAGTTAATAACCTGCCACGCGCCCGCTTTTAGCGCGCTCTGCGCTTTTTGC  >  minE/2802451‑2802581

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A