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
A8 F1 I2 R1	765	53.2	2691310	93.4%	2513683	103.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,534,656	C→T	G405R (GGG→AGG)	envZ ←	sensory histidine kinase in two‑component regulatory system with OmpR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,534,656	0	C	T	100.0%	100.0 / NA	32	G405R (GGG→AGG)	envZ	sensory histidine kinase in two‑component regulatory system with OmpR
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (17/15); total (17/15)

CTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCCTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTCCACCTGGAACCAGGCGC  >  NC_000913/3534521‑3534772

cttcttTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTaa                                                                                                                   >  2:1026335/1‑139 (MQ=255)

  tcttTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATc                                                                                                                 >  1:143493/1‑139 (MQ=255)

             gCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGc                                                                                                           <  2:970466/134‑1 (MQ=255)

             gCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGc                                                                                                           >  1:970466/1‑134 (MQ=255)

              cccTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTaa                                                                                                     >  2:1209813/1‑139 (MQ=255)

               ccTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAAt                                                                                                    <  2:940703/139‑1 (MQ=255)

                                  cACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTcgccg                                                                                 >  1:1037814/1‑139 (MQ=255)

                                      ggCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGa                                                                             >  2:1303474/1‑139 (MQ=255)

                                         aGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACaa                                                                          <  2:1037814/139‑1 (MQ=255)

                                                     aTGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACa                                                              <  1:427726/139‑1 (MQ=255)

                                                             cccgccccgcTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTa                                                      >  2:236653/1‑139 (MQ=255)

                                                               cgccccgcTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGt                                                           >  2:991804/1‑132 (MQ=255)

                                                               cgccccgcTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGt                                                           <  1:991804/132‑1 (MQ=255)

                                                                    cgctcgctGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAAt                                                                                                    >  1:739989/1‑86 (MQ=255)

                                                                    cgctcgctGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAAt                                                                                                    <  2:739989/86‑1 (MQ=255)

                                                                           tGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGgcgc                                        >  2:42359/1‑139 (MQ=255)

                                                                           tGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGgcgc                                        <  2:143493/139‑1 (MQ=255)

                                                                                ccAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTc                                   >  2:738316/1‑139 (MQ=255)

                                                                                   aGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCg                                <  1:1303474/139‑1 (MQ=255)

                                                                                     cTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGa                              <  1:236653/139‑1 (MQ=255)

                                                                                            aTCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCAt                       <  1:1209813/139‑1 (MQ=255)

                                                                                              cccGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGa                              <  1:1161449/130‑1 (MQ=255)

                                                                                              cccGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGa                              >  2:1161449/1‑130 (MQ=255)

                                                                                                               cGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTCCACCTGGAACCAGgc    >  1:760848/1‑139 (MQ=255)

                                                                                                                gATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTCCACCTGGAACCAGgcg   <  2:760848/139‑1 (MQ=255)

                                                                                                                 aTACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTCCACCTGGAACCAGgcgc  >  1:448221/1‑139 (MQ=255)

                                                                                                                  tACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGc                                                                     >  2:695816/1‑71 (MQ=255)

                                                                                                                  tACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGc                                                                     <  1:695816/71‑1 (MQ=255)

                                                                                                                       tGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGaa                                                                <  2:98951/71‑1 (MQ=255)

                                                                                                                       tGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGaa                                                                >  1:98951/1‑71 (MQ=255)

                                                                                                                         cacaATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGgcgc                                        >  2:687434/1‑93 (MQ=255)

                                                                                                                         cacaATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGgcgc                                        <  1:687434/93‑1 (MQ=255)

CTTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCCTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTCCACCTGGAACCAGGCGC  >  NC_000913/3534521‑3534772

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 28 ≤` `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