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	3,248,939	T→C	intergenic (+117/‑30)	mzrA → / → yqjC	modulator of EnvZ/OmpR regulon/DUF1090 family putative periplasmic protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,248,939	0	T	C	100.0%	215.8 / NA	60	intergenic (+117/‑30)	mzrA/yqjC	modulator of EnvZ/OmpR regulon/DUF1090 family putative periplasmic protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (33/27); total (33/27)

CTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAATAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATGCCACTACCCTGTGTCAGGAAAAGGAGCAAAATATCCTTAAGG  >  NC_000913/3248806‑3249068

ctcATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTc                                                                                                                              <  2:1184846/139‑1 (MQ=255)

ctcATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTc                                                                                                                              <  2:57879/139‑1 (MQ=255)

              tAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGa                                                                                                                <  2:284235/139‑1 (MQ=255)

                                          tcactTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCt                                                                                    >  1:879643/1‑139 (MQ=255)

                                            actTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCttt                                                                                  >  2:1271460/1‑139 (MQ=255)

                                              tttGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGa                                                                                                                           >  1:1209992/1‑96 (MQ=255)

                                              tttGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGa                                                                                                                           <  2:1209992/96‑1 (MQ=255)

                                              tttGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAg                                                                                >  2:253168/1‑139 (MQ=255)

                                                 ggTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATc                                                                                                                        <  2:582929/96‑1 (MQ=255)

                                                 ggTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATc                                                                                                                        >  1:582929/1‑96 (MQ=255)

                                                     aTTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTtc                                                                         <  1:253168/139‑1 (MQ=255)

                                                                    tCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAg                                                          >  1:651773/1‑139 (MQ=255)

                                                                      tATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAgg                                                                                                             >  1:1273828/1‑86 (MQ=255)

                                                                      tATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAgg                                                                                                             <  2:1273828/86‑1 (MQ=255)

                                                                              aTGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGt                                                >  2:1240269/1‑139 (MQ=255)

                                                                              aTGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGt                                                >  1:928458/1‑139 (MQ=255)

                                                                              aTGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGt                                                >  1:1190841/1‑139 (MQ=255)

                                                                                     ggtggtTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATGCCa                                         <  1:1271460/139‑1 (MQ=255)

                                                                                       tggtTAACACTACCGCTTCGTTGTCTGGAAAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAAAGAAATACCGCATCGCTTTCGCTGTTTCTCTCTTTCCTCTTAGTGCCGGTAGTTATGCCAcc                                       >  2:332525/1‑138 (MQ=255)

                                                                                                 tACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAAt                                                                                                                         <  2:1131345/47‑1 (MQ=255)

                                                                                                 tACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAAt                                                                                                                         >  1:1131345/1‑47 (MQ=255)

                                                                                                 tACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGc                                                                                          <  1:434154/78‑1 (MQ=255)

                                                                                                 tACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGc                                                                                          >  2:434154/1‑78 (MQ=255)

                                                                                                 tACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTtc                                                                         <  1:78386/95‑1 (MQ=255)

                                                                                                 tACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGc                                                                >  1:603804/1‑104 (MQ=255)

                                                                                                 tACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGc                                                                <  2:603804/104‑1 (MQ=255)

                                                                                                 tACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGt                                                         <  2:1251235/111‑1 (MQ=255)

                                                                                                 tACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGt                                                         >  1:1251235/1‑111 (MQ=255)

                                                                                                 tACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATGCCACTACCCTGTGTc                             >  2:382117/1‑139 (MQ=255)

                                                                                                 tACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATGCCACTACCCTGTGTc                             >  2:1043089/1‑139 (MQ=255)

                                                                                                 tACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATGCCACTACCCTGTGTc                             >  2:1050257/1‑139 (MQ=255)

                                                                                                 tACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAAGTCCGAATCACAATGGAAGGATCAAGAATGAAATACCGCATCGCTGTAGCTGTTtc                                                                         >  2:78386/1‑95 (MQ=255)

                                                                                                   ccGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCAt                                                                                        <  1:450323/78‑1 (MQ=255)

                                                                                                   ccGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCAt                                                                                        >  2:450323/1‑78 (MQ=255)

                                                                                                   ccGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGct                                                               <  2:1022919/103‑1 (MQ=255)

                                                                                                   ccGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGct                                                               >  1:1022919/1‑103 (MQ=255)

                                                                                                   ccGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTa                                              >  1:183328/1‑120 (MQ=255)

                                                                                                   ccGCTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTa                                              <  2:183328/120‑1 (MQ=255)

                                                                                                   ccGCTTCATTGTCTGGACAATCGTACCTTTGTAACAGGTCAGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATGCCACTACCCTGTGTCAg                           >  1:821635/1‑139 (MQ=255)

                                                                                                      cTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATGCCa                                         >  1:197904/1‑122 (MQ=255)

                                                                                                      cTTCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATGCCa                                         <  2:197904/122‑1 (MQ=255)

                                                                                                        tCGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGtt                                                                                                           <  1:911555/54‑1 (MQ=255)

                                                                                                        tCGTTGTCTGGACAATCGTTCCTTCGTAACAGGTCCGAATCACAATGGAAGGtt                                                                                                           >  2:911555/1‑54 (MQ=255)

                                                                                                         cGTTGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATGCCACTACCCTGTGTCAGGAAAAg                     <  2:651773/139‑1 (MQ=255)

                                                                                                            tGTCTGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATGCCACTACCCTGTGTCAGGAAAAGGAg                  <  1:836600/139‑1 (MQ=255)

                                                                                                                tGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATg                                            <  1:1226781/109‑1 (MQ=255)

                                                                                                                tGGACAATCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATg                                            >  2:1226781/1‑109 (MQ=255)

                                                                                                                      aTCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATGCCACTACCCTGTGTCAGGAAAAGGAGCAAAATATcc        <  2:1037135/139‑1 (MQ=255)

                                                                                                                       tCGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATGCCACTACCCTGTGTCAGGAAAAGGAGCAAAATATCCt       >  1:749675/1‑139 (MQ=255)

                                                                                                                        cGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGcc                                                      <  2:485316/91‑1 (MQ=255)

                                                                                                                        cGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGcc                                                      >  1:485316/1‑91 (MQ=255)

                                                                                                                        cGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATGCCACTACCCTGTGTCAGGAAAAGGAGCAAAata           <  1:126234/134‑1 (MQ=255)

                                                                                                                        cGTTCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATGCCACTACCCTGTGTCAGGAAAAGGAGCAAAata           >  2:126234/1‑134 (MQ=255)

                                                                                                                          ttCCTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATGCCACTACCCTGTGTCAGGAAAAGGAGCAAAATATCCTTaa    >  1:1307333/1‑139 (MQ=255)

                                                                                                                           tCCTTTGTAACAGTTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATGCCACTACCCTGTGTCAGGAAAAGGAGCAAAATATCCTTAAg   <  1:332525/139‑1 (MQ=255)

                                                                                                                            ccTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCAt                                                                                        <  2:817519/53‑1 (MQ=255)

                                                                                                                            ccTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATg                                            <  1:802642/97‑1 (MQ=255)

                                                                                                                            ccTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATg                                            >  2:802642/1‑97 (MQ=255)

                                                                                                                            ccTTTGTAACAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATGCCACTACCCTGTGTCAGGAAAAGGAGCAAAATATCCTTAAgg  >  1:506779/1‑139 (MQ=255)

                                                                                                                            ccTTTGTAACAGGTACGAATCACAATGGAAGGTTCAAGAATGAAATACCGCAt                                                                                        >  1:817519/1‑53 (MQ=38)

CTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAATAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGCTTTAGCTGTTTCTCTCTTTGCTCTTAGTGCCGGTAGTTATGCCACTACCCTGTGTCAGGAAAAGGAGCAAAATATCCTTAAGG  >  NC_000913/3248806‑3249068

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `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