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
A14 F1 I2 R1	70	59.9	2639336	94.5%	2494172	113.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,637,373	T→C	V226V (GTT→GTC)	creC →	sensory histidine kinase in two‑component regulatory system with CreB or PhoB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,637,373	0	T	C	100.0%	185.1 / NA	50	V226V (GTT→GTC)	creC	sensory histidine kinase in two‑component regulatory system with CreB or PhoB
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (26/24); total (26/24)

CGGCGAATTTTATGGGCCAGCGCCATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTTCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCAGTATGTTTACGCATTAACTCATGAGCTAAAAAG  >  NC_000913/4637239‑4637501

cggcgAATTTTATGGGCCAGCGCCATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCctc                                                                                                                              >  2:462254/1‑139 (MQ=255)

cggcgAATTTTATGGGCCAGCGCCATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCctc                                                                                                                              >  1:310064/1‑139 (MQ=255)

 ggcgAATTTTATGGGCCAGCGCCATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCGCTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCctct                                                                                                                             >  1:855096/1‑139 (MQ=255)

 ggcgAATTTTATGGGCCAGCGCCATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCctct                                                                                                                             >  1:1016283/1‑139 (MQ=255)

          tATGGGCCAGCGCCATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGAtct                                                                                                                    <  1:326308/139‑1 (MQ=255)

            tGGGCCAGCGCCATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCg                                                                                                                  >  2:1167308/1‑139 (MQ=255)

             gggCCAGCGCCATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCgg                                                                                                                 <  2:492273/139‑1 (MQ=255)

               gCCAGCGCCATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACGCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGgta                                                                                                               >  2:701906/1‑139 (MQ=255)

                  aGCGCCATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGgtagta                                                                                                            >  2:896441/1‑139 (MQ=255)

                       cATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAg                                                                                                       <  1:462254/139‑1 (MQ=255)

                                      tGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAg                                                                                                       >  2:83748/1‑124 (MQ=255)

                                      tGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAg                                                                                                       <  1:83748/124‑1 (MQ=255)

                                      tGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTcgcg                                                                                        <  1:62806/139‑1 (MQ=255)

                                         aCTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAg                                                                                     <  1:1293629/139‑1 (MQ=255)

                                           tGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGgc                                                                                   <  2:422477/139‑1 (MQ=255)

                                             gTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGgcgc                                                                                 >  1:1267946/1‑139 (MQ=255)

                                              tGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCgg                                                                                                                 <  1:1110857/106‑1 (MQ=255)

                                              tGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCgg                                                                                                                 >  2:1110857/1‑106 (MQ=255)

                                                aTTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTgg                                                                              >  1:58175/1‑139 (MQ=255)

                                                 ttGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGa                                                                             <  1:1308886/139‑1 (MQ=255)

                                                       cAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTAt                                                                       <  2:943614/139‑1 (MQ=255)

                                                               gTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGAt                                                                                                                      >  1:1229150/1‑84 (MQ=255)

                                                               gTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGAt                                                                                                                      <  2:1229150/84‑1 (MQ=255)

                                                                    gtggATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCgcgc                                                                                       <  1:1173612/110‑1 (MQ=255)

                                                                    gtggATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCgcgc                                                                                       >  2:1173612/1‑110 (MQ=255)

                                                                    gtggATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTg                                                          >  2:1130982/1‑139 (MQ=255)

                                                                    gtggATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTg                                                          >  2:416812/1‑139 (MQ=255)

                                                                    gtggATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTg                                                          >  2:866198/1‑139 (MQ=255)

                                                                         tCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAgg                                                     >  1:543279/1‑139 (MQ=255)

                                                                          cAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGgc                                                                                   <  1:432853/108‑1 (MQ=255)

                                                                          cAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGgc                                                                                   >  2:432853/1‑108 (MQ=255)

                                                                          cAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAggg                                                    <  1:1167308/139‑1 (MQ=255)

                                                                          cAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAggg                                                    >  1:622265/1‑139 (MQ=255)

                                                                                 tctATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCgcgc                                                                                       <  2:1077009/97‑1 (MQ=255)

                                                                                 tctATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCgcgc                                                                                       >  1:1077009/1‑97 (MQ=255)

                                                                                       gCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTg                                       <  2:1267946/139‑1 (MQ=255)

                                                                                        cccGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGa                                      >  1:1315949/1‑139 (MQ=255)

                                                                                         ccGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAg                                     <  1:210523/139‑1 (MQ=255)

                                                                                         ccGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAg                                     <  2:946064/139‑1 (MQ=255)

                                                                                                  tCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCTGTATGtt                            <  2:1282580/139‑1 (MQ=255)

                                                                                                               tCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCAGTATGTTTACGCATTAACTc               <  1:287340/139‑1 (MQ=255)

                                                                                                                  gTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCAGTATGTTTACGCATTAACTCATg            >  1:682871/1‑139 (MQ=255)

                                                                                                                  gTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATCGAGCAGTATGTTTACGCATTAACTCATg            >  1:1063153/1‑139 (MQ=255)

                                                                                                                     aCTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTg                                                                >  2:1068913/1‑84 (MQ=255)

                                                                                                                     aCTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTg                                                                <  1:1068913/84‑1 (MQ=255)

                                                                                                                         aCAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGgc                                                                                   >  2:784427/1‑61 (MQ=255)

                                                                                                                         aCAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGgc                                                                                   <  1:784427/61‑1 (MQ=255)

                                                                                                                            aTAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCAGTATGTTTACGCATTAACTCATGAGCTAAAAAg  <  1:701906/139‑1 (MQ=255)

                                                                                                                                   cGTCCCTCTCCCCGATCTGGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAggg                                                    >  1:730860/1‑82 (MQ=255)

                                                                                                                                   cGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAggg                                                    <  2:730860/82‑1 (MQ=255)

CGGCGAATTTTATGGGCCAGCGCCATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTTCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCAGTATGTTTACGCATTAACTCATGAGCTAAAAAG  >  NC_000913/4637239‑4637501

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