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 I1 R1	770	68.5	3470224	91.7%	3182195	103.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,021,501	G→A	138 (TAG→TAA)	fliN →	flagellar motor switching and energizing component

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,021,501	0	G	A	100.0%	208.4 / NA	64	138 (TAG→TAA)	fliN	flagellar motor switching and energizing component
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (35/29); total (35/29)

AACCACTGGATATTCTGATCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAGTGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTAAAACGGTTGGGAT  >  NC_000913/2021371‑2021633

aaCCACTGGATATTCTGATCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAAt                                                                                                                              <  1:1501083/139‑1 (MQ=255)

                gATCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAAt                                                                                                                              >  2:1335171/1‑123 (MQ=255)

                gATCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAAt                                                                                                                              <  1:1335171/123‑1 (MQ=255)

                gATCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGc                                                                                                              >  2:249822/1‑139 (MQ=255)

                  tCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCaa                                                                                                            >  2:1399442/1‑139 (MQ=255)

                    aaCGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATc                                                                                                          >  2:1524637/1‑139 (MQ=255)

                         ttATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCcg                                                                                                     >  1:308474/1‑139 (MQ=255)

                           aTTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCcgcg                                                                                                   <  1:960366/139‑1 (MQ=255)

                                aTCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGt                                                                                              >  1:968575/1‑139 (MQ=255)

                                     ccAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTctg                                                                                         <  1:1524637/139‑1 (MQ=255)

                                                        gTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGt                                                                      >  2:384828/1‑139 (MQ=255)

                                                          tGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGa                                                                    >  1:966233/1‑139 (MQ=255)

                                                           gCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAg                                                                   <  1:521049/139‑1 (MQ=255)

                                                                   atatGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCACCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTctgctg                                                                                      >  1:1512106/1‑112 (MQ=255)

                                                                   atatGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCACCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTctgctg                                                                                      <  2:1512106/112‑1 (MQ=255)

                                                                      tGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCa                                                        >  2:521952/1‑139 (MQ=255)

                                                                      tGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCa                                                        >  2:1732975/1‑139 (MQ=255)

                                                                           tGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGcc                                                   >  2:1722360/1‑139 (MQ=255)

                                                                             cGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCcgcg                                                                                                   >  2:419723/1‑89 (MQ=255)

                                                                             cGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCcgcg                                                                                                   <  1:419723/89‑1 (MQ=255)

                                                                             cGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCat                                                 >  1:386250/1‑139 (MQ=255)

                                                                              ggATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCatt                                                >  1:864842/1‑139 (MQ=255)

                                                                               gATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCatta                                               <  2:966233/139‑1 (MQ=255)

                                                                               gATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCatta                                               <  1:1399442/139‑1 (MQ=255)

                                                                                aTCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCattat                                              <  2:308474/139‑1 (MQ=255)

                                                                                aTCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCattat                                              <  2:386250/139‑1 (MQ=255)

                                                                                       atatCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATc                                                      >  1:430559/1‑124 (MQ=255)

                                                                                       atatCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATc                                                      <  2:430559/124‑1 (MQ=255)

                                                                                        tatCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGCGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGa                                      >  2:1376937/1‑139 (MQ=255)

                                                                                               aCTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCgc                               <  1:620463/139‑1 (MQ=255)

                                                                                               aCTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCgc                               >  2:620463/1‑139 (MQ=255)

                                                                                                 tCCGTCTTAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCa                                                                                                                         >  2:1134073/1‑47 (MQ=255)

                                                                                                 tCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCa                                                                                                                         <  1:1134073/47‑1 (MQ=255)

                                                                                                   cGTCTGAGCGAATGCGCCGCCTGAGCCGTTCATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTgcgc                                                                                   >  1:559965/1‑83 (MQ=255)

                                                                                                   cGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTgcgc                                                                                   <  2:559965/83‑1 (MQ=255)

                                                                                                   cGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCatta                                               >  2:573229/1‑119 (MQ=255)

                                                                                                   cGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCatta                                               <  1:573229/119‑1 (MQ=255)

                                                                                                     tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAAt                                                                                                                              <  2:1412857/38‑1 (MQ=255)

                                                                                                     tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAAt                                                                                                                              >  1:1412857/1‑38 (MQ=255)

                                                                                                     tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACg                                                                                                                       <  2:117916/45‑1 (MQ=255)

                                                                                                     tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACg                                                                                                                       >  1:117916/1‑45 (MQ=255)

                                                                                                     tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGc                                                                                                                      <  1:497299/46‑1 (MQ=255)

                                                                                                     tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGc                                                                                                                      >  2:497299/1‑46 (MQ=255)

                                                                                                     tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAg                                                                   >  2:863948/1‑97 (MQ=255)

                                                                                                     tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAg                                                                   <  1:863948/97‑1 (MQ=255)

                                                                                                     tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCtgctgc                         >  2:375861/1‑139 (MQ=255)

                                                                                                     tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCtgctgc                         >  2:778183/1‑139 (MQ=255)

                                                                                                     tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCtgctgc                         >  2:1261376/1‑139 (MQ=255)

                                                                                                     tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCtgctgc                         >  1:41980/1‑139 (MQ=255)

                                                                                                        gAGCGAATGCGCCGCCTGAGCCGTTAATGATGAAt                                                                                                                              >  2:328339/1‑35 (MQ=255)

                                                                                                        gAGCGAATGCGCCGCCTGAGCCGTTAATGATGAAt                                                                                                                              <  1:328339/35‑1 (MQ=255)

                                                                                                        gAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCctg                      <  1:1722360/139‑1 (MQ=255)

                                                                                                         aGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCatta                                               <  1:728691/113‑1 (MQ=255)

                                                                                                         aGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCatta                                               >  2:728691/1‑113 (MQ=255)

                                                                                                              aTGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCgc                               >  2:1008313/1‑124 (MQ=255)

                                                                                                              aTGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCgc                               <  1:1008313/124‑1 (MQ=255)

                                                                                                               tGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAg                                                                        >  2:583590/1‑82 (MQ=255)

                                                                                                               tGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAg                                                                        <  1:583590/82‑1 (MQ=255)

                                                                                                               tGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTa               >  2:1413626/1‑139 (MQ=255)

                                                                                                                 cgccgcCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTaaa             <  2:51537/139‑1 (MQ=255)

                                                                                                                     gccTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTAAAACgg         <  1:1261376/139‑1 (MQ=255)

                                                                                                                        tGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTAAAACGGTTg      <  1:375861/139‑1 (MQ=255)

                                                                                                                          aGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTAAAACGGTTggg    >  1:1397672/1‑139 (MQ=255)

                                                                                                                            ccGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTAAAACGGTTGGGAt  <  1:249822/139‑1 (MQ=255)

AACCACTGGATATTCTGATCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAGTGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTAAAACGGTTGGGAT  >  NC_000913/2021371‑2021633

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `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