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
A11 F1 I2 R1	760	67.6	3323148	92.7%	3080558	109.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,054,439	A→G	T280T (ACT→ACC)	glnG ←	fused DNA‑binding response regulator in two‑component regulatory system with GlnL: response regulator/sigma54 interaction protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,054,439	0	A	G	100.0%	200.8 / NA	56	T280T (ACT→ACC)	glnG	fused DNA‑binding response regulator in two‑component regulatory system with GlnL: response regulator/sigma54 interaction protein
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (31/25); total (31/25)

TGGCGCGCCAGACGGGGAATATCTTCCCGACGTTCGCGCAGCGGCGGCAGATGAACGCGGATAACGTTCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGAGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAGCGGCATATCACCAATTTCGTCGAGGAA  >  NC_000913/4054308‑4054570

tGGCGCGCCAGACGGGGAATATCTTCCCGACGTTCGCGCAGCGGCGGCAGATGAACGCGGATAACGTTCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAg                                                                                                                              >  1:593532/1‑139 (MQ=255)

               ggAATATCTTCCCGACGTTCGCGCAGCGGCGGCAGATGAACGCGGATAACGTTCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACAt                                                                                                               <  1:1579389/139‑1 (MQ=255)

                    atCTTCCCGACGTTCGCGCAGCGGCGGCAGATGAACGCGGATAACGTTCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGgtgggtgg                                                                                                                                 <  2:1428947/116‑1 (MQ=255)

                    atCTTCCCGACGTTCGCGCAGCGGCGGCAGATGAACGCGGATAACGTTCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGgtgggtgg                                                                                                                                 >  1:1428947/1‑116 (MQ=255)

                        tCCCGACGTTCGCGCAGCGGCGGCAGATGAACGCGGATAACGTTCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCa                                                                                                      >  2:750937/1‑139 (MQ=255)

                         cccGACGTTCGCGCAGCGGCGGCAGATGAACGCGGATAACGTTCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCAc                                                                                                     >  2:662383/1‑139 (MQ=255)

                               gTTCGCGCAGCGGCGGCAGATGAACGCGGATAACGTTCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGgcgc                                                                                               >  1:138690/1‑139 (MQ=255)

                                 tCGCGCAGCGGCGGCAGATGAACGCGGATAACGTTCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCAt                                                                                             >  1:673013/1‑139 (MQ=255)

                                 tCGCGCAGCGGCGGCAGATGAACGCGGATAACGTTCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCAt                                                                                             >  1:1601214/1‑139 (MQ=255)

                                  cgcgCAGCGGCGGCAGATGAACGCGGATAACGTTCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATa                                                                                            >  1:1269957/1‑139 (MQ=255)

                                            cggcAGATGAACGCGGATAACGTTCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAAcg                                                                                  <  2:138690/139‑1 (MQ=255)

                                             ggcAGATGAACGCGGATAACGTTCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAAcgc                                                                                 <  2:593532/139‑1 (MQ=255)

                                                  aTGAACGCGGATAACGTTCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTaa                                                                            <  2:319798/139‑1 (MQ=255)

                                                   tGAACGCGGATAACGTTCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTaaa                                                                           >  2:181724/1‑139 (MQ=255)

                                                        gcgGATAACGTTCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGa                                                                      >  1:769548/1‑139 (MQ=255)

                                                         cgGATAACGTTCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGAc                                                                     >  1:613347/1‑139 (MQ=255)

                                                          ggATAACGTTCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGAcc                                                                    <  2:1601214/139‑1 (MQ=255)

                                                                  ttCAGGCGGTGGAACCGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCa                                                                                                                               >  2:1106072/1‑72 (MQ=255)

                                                                  ttCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCa                                                                                                                               <  1:1106072/72‑1 (MQ=255)

                                                                    cAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGca                                                                                                                  <  2:1470819/83‑1 (MQ=255)

                                                                    cAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCATGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGca                                                                                                                  >  1:1470819/1‑83 (MQ=255)

                                                                      ggCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCg                                                                                                                            >  2:1246229/1‑71 (MQ=255)

                                                                      ggCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCg                                                                                                                            <  1:1246229/71‑1 (MQ=255)

                                                                          gTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCGGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACgcgc                                                    >  2:1076722/1‑139 (MQ=255)

                                                                                   aTCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAAcgc                                           <  2:769548/139‑1 (MQ=255)

                                                                                     ccTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGt                                         >  1:1574835/1‑139 (MQ=255)

                                                                                       tCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCt                                       >  1:622953/1‑139 (MQ=255)

                                                                                        cACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCAcgcg                                                     <  2:81492/124‑1 (MQ=255)

                                                                                        cACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCAcgcg                                                     >  1:81492/1‑124 (MQ=255)

                                                                                        cACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTg                                      >  2:1574972/1‑139 (MQ=255)

                                                                                          cGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGca                                    <  1:1574972/139‑1 (MQ=255)

                                                                                          cGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGca                                    <  2:131450/139‑1 (MQ=255)

                                                                                               cTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATcc                               <  2:1593519/139‑1 (MQ=255)

                                                                                               cTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGCAAAACTGACCGTCTGCCAGCACGCGAAGCAAACGCGTCTGCACATcc                               >  2:459834/1‑139 (MQ=255)

                                                                                                 tACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAg                             <  2:673013/139‑1 (MQ=255)

                                                                                                 tACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAg                             >  1:135090/1‑139 (MQ=255)

                                                                                                       ccTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGca                                                                                                                  >  1:1090106/1‑48 (MQ=255)

                                                                                                       ccTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGca                                                                                                                  <  2:1090106/48‑1 (MQ=255)

                                                                                                       ccTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCAcgcg                                                     <  2:607965/109‑1 (MQ=255)

                                                                                                       ccTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCAcgcg                                                     >  1:607965/1‑109 (MQ=255)

                                                                                                       ccTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAAcgcg                                          <  1:966090/120‑1 (MQ=255)

                                                                                                       ccTGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAAcgcg                                          >  2:966090/1‑120 (MQ=255)

                                                                                                         tGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAGCGGCatat                     >  1:868587/1‑139 (MQ=255)

                                                                                                         tGCACTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAGCGGCatat                     >  1:675559/1‑139 (MQ=255)

                                                                                                             cTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAGCGGCATATCAcc                 >  1:586268/1‑139 (MQ=255)

                                                                                                             cTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAGCGGCATATCAcc                 >  1:541682/1‑139 (MQ=255)

                                                                                                             cTCGCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAGCGGCATATCAcc                 >  1:1241917/1‑139 (MQ=255)

                                                                                                                gCTGTTCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAGCGGCATATCACCAAt              >  1:987386/1‑139 (MQ=255)

                                                                                                                    ttCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTGTGCCAGCACGCGCAGCaaa                                              >  1:881264/1‑103 (MQ=255)

                                                                                                                    ttCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCaaa                                              <  2:881264/103‑1 (MQ=255)

                                                                                                                    ttCGAGATTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAGCGGCATATCACCAATTtcg          <  2:987386/139‑1 (MQ=255)

                                                                                                                    ttCGAGATTCTGGTGGGTGGCAGCGATAAGCCGCTCATCCACTTTCACCGGCGCATAGCCGCCAACGCTGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAGCGGCATATCACCAATTtcg          <  1:1060966/139‑1 (MQ=255)

                                                                                                                       gagaTTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAGCGGCATATCACCAATTtcgtcg       <  2:1574835/139‑1 (MQ=255)

                                                                                                                       gagaTTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAGCGGCATATCACCAATTtcgtcg       <  1:750937/139‑1 (MQ=255)

                                                                                                                       gagaTTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAGCGGCATATCACCAATTtcgtcg       <  1:1261356/139‑1 (MQ=255)

                                                                                                                          aTTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAGCGGCATATCACCAATTtcgtc        >  2:736461/1‑135 (MQ=255)

                                                                                                                          aTTCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAGCGGCATATCACCAATTtcgtc        <  1:736461/135‑1 (MQ=255)

                                                                                                                            tCTGGTGGGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAGCGGCATATCACCAATTTCGTCGAGGaa  <  1:662383/139‑1 (MQ=255)

                                                                                                                              tggtggGTGGCAGCGATAATCCGCACATCCACTTTCAc                                                                                                     <  2:1423833/38‑1 (MQ=255)

                                                                                                                              tggtggGTGGCAGCGATAATCCGCACATCCACTTTCAc                                                                                                     >  1:1423833/1‑38 (MQ=255)

                                                                                                                              tggtggGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAGCg                           >  1:842545/1‑112 (MQ=255)

                                                                                                                              tggtggGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAGCg                           <  2:842545/112‑1 (MQ=255)

TGGCGCGCCAGACGGGGAATATCTTCCCGACGTTCGCGCAGCGGCGGCAGATGAACGCGGATAACGTTCAGGCGGTGGAACAGATCCTCACGGAACTTACCTTCCTGCACTCGCTGTTCGAGATTCTGGTGAGTGGCAGCGATAATCCGCACATCCACTTTCACCGGCGCATAGCCGCCAACGCGGTAAAACTGACCGTCTGCCAGCACGCGCAGCAAACGCGTCTGCACATCCAGCGGCATATCACCAATTTCGTCGAGGAA  >  NC_000913/4054308‑4054570

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