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	770	51.4	2439994	93.8%	2288714	110.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,854,092	T→C	G57G (GGT→GGC)	emrD →	multidrug efflux system protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,854,092	0	T	C	100.0%	138.4 / NA	40	G57G (GGT→GGC)	emrD	multidrug efflux system protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (21/19); total (21/19)

TGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCGGAATGTCCATTTTTATGCTGGCAACGCTGGTCGCGGTCACGACCTCCAGTTTGACGGTGTT  >  NC_000913/3853959‑3854217

tGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGtctc                                                                                                                          >  1:1054435/1‑139 (MQ=255)

tGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGtctc                                                                                                                          >  2:1138871/1‑139 (MQ=255)

 ggTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTca                                                                                                                         <  1:1138871/139‑1 (MQ=255)

        cTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGt                                                                                                                  >  2:1133160/1‑139 (MQ=255)

                 gTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGcc                                                                                                         <  2:271797/139‑1 (MQ=255)

                  tCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCTCGCGATCGCAACGTCAGTGAAGGCGCGGTGCTGAGCGTAGTGGGCGCCTATCTGCTCATCTACGGCGTCTCACAGCTGTTTTATGGccc                                                                                                        >  2:964525/1‑139 (MQ=255)

                   cGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCg                                                                                                       >  2:626433/1‑139 (MQ=255)

                                    ccATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTggg                                                                                      <  2:349572/139‑1 (MQ=255)

                                            atTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGAc                                                                              <  1:882448/139‑1 (MQ=255)

                                             ttCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGAcc                                                                             >  2:114953/1‑139 (MQ=255)

                                               ccAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGtct                                                                                                                           <  2:527840/91‑1 (MQ=255)

                                               ccAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGtct                                                                                                                           >  1:527840/1‑91 (MQ=255)

                                               ccAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTcac                                                                                                                        >  1:1161330/1‑94 (MQ=255)

                                               ccAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTcac                                                                                                                        <  2:1161330/94‑1 (MQ=255)

                                                  gCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGgccgcc                                                                                 >  2:949310/1‑130 (MQ=255)

                                                  gCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGgccgcc                                                                                 <  1:949310/130‑1 (MQ=255)

                                                  gCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGa                                                                        >  2:1018006/1‑139 (MQ=255)

                                                        gCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTAt                                                                                                             >  2:662868/1‑96 (MQ=255)

                                                        gCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTAt                                                                                                             <  1:662868/96‑1 (MQ=255)

                                                             tatGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGccgccg                                                                                >  2:508215/1‑120 (MQ=255)

                                                             tatGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGccgccg                                                                                <  1:508215/120‑1 (MQ=255)

                                                                   gcgcgATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGgccgcc                                                                                 <  1:81395/113‑1 (MQ=255)

                                                                   gcgcgATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGgccgcc                                                                                 >  2:81395/1‑113 (MQ=255)

                                                                    cgcgATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTcc                                                                                                 <  2:428400/96‑1 (MQ=255)

                                                                    cgcgATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTATATGGCCCGATTTcc                                                                                                 >  1:428400/1‑96 (MQ=255)

                                                                                   cGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCGGAATGTc                                                        <  1:156609/122‑1 (MQ=255)

                                                                                   cGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCGGAATGTc                                                        >  2:156609/1‑122 (MQ=255)

                                                                                            gCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCGGAATGTCCAttt                                                   <  2:598851/118‑1 (MQ=255)

                                                                                            gCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCGGAATGTCCAttt                                                   >  1:598851/1‑118 (MQ=255)

                                                                                                  cAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCGGAATGTCCATTTTTATGCTGGCAACGCTGGTCGCGGTCa                        <  1:1018006/139‑1 (MQ=255)

                                                                                                    gagCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCGGAATGTCCATTTTTATGCTGGCAACGCTGGTCGCAGTCACg                      <  2:417107/139‑1 (MQ=255)

                                                                                                     agCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGa                                                                               >  1:226765/1‑81 (MQ=255)

                                                                                                     agCGTAATGGGCGCTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGa                                                                               <  2:226765/81‑1 (MQ=255)

                                                                                                                 gcTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCgg                                                              >  2:1146406/1‑86 (MQ=255)

                                                                                                                 gcTTATCTGCTGACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCgg                                                              <  1:1146406/86‑1 (MQ=255)

                                                                                                                        tgctgACTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCGGAATGTCCATTTTTATGCTGGCAACGCTGGTCGCGGTCACGACCTCCAGTTTGACGGTGtt  >  1:678971/1‑139 (MQ=255)

                                                                                                                             aCTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCtcgtcg                                                               >  2:157302/1‑73 (MQ=255)

                                                                                                                             aCTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCtcgtcg                                                               <  1:157302/73‑1 (MQ=255)

                                                                                                                             aCTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCGGAATGTCCATTTTTATGCTGGCAACGCTGGTCGCGGTCACGAc                    <  1:750245/116‑1 (MQ=255)

                                                                                                                             aCTTACGGCGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCGGAATGTCCATTTTTATGCTGGCAACGCTGGTCGCGGTCACGAc                    >  2:750245/1‑116 (MQ=255)

TGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATATTCCAGCTATTGCCGATATGGCGCGCGATCTCAACGTCCGTGAAGGGGCGGTGCAGAGCGTAATGGGCGCTTATCTGCTGACTTACGGTGTCTCACAGCTGTTTTATGGCCCGATTTCCGACCGCGTGGGCCGCCGACCGGTGATCCTCGTCGGAATGTCCATTTTTATGCTGGCAACGCTGGTCGCGGTCACGACCTCCAGTTTGACGGTGTT  >  NC_000913/3853959‑3854217

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A