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
A7 F1 I2 R1	766	64.2	3232166	90.9%	2938038	104.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,966,188	C→T	749 (TAG→TAA)	ptsP ←	PEP‑protein phosphotransferase enzyme I, GAF domain containing protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,966,188	0	C	T	100.0%	155.4 / NA	49	749 (TAG→TAA)	ptsP	PEP‑protein phosphotransferase enzyme I, GAF domain containing protein
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (29/20); total (29/20)

GCGATTGAAATGCGCGCCGCAGGTTTCAGGCGCTCCAAAGGTGCGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGCTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCTTCGGCATAATCAATGCGC  >  NC_000913/2966078‑2966323

gCGATTGAAATGCGCGCCGCAGGTTTCAGGCGCTCCAAAGGTGCGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCa                                                                                                             >  1:1019596/1‑139 (MQ=255)

gCGATTGAAATGCGCGCCGCAGGTTTCAGGCGCTCCAAAGGTGCGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCa                                                                                                             >  1:461905/1‑139 (MQ=255)

   aTTGAAATGCGCGCCGCAGGTTTCAGGCGCTCCAAAGGTGCGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGc                                                                                                          >  2:1064126/1‑139 (MQ=255)

       aaaTGCGCGCCGCAGGTTTCAGGCGCTCCAAAGGTGCGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCcgcg                                                                                                      <  2:1019596/139‑1 (MQ=255)

              cgccgcAGGTTTCAGGCGCTCCAAAGGTGCGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTcc                                                                                               >  1:25297/1‑139 (MQ=255)

                 cgcAGGTTTCAGGCGCTCCAAAGGTGCGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATa                                                                                            >  2:591354/1‑139 (MQ=255)

                                cTCCAAAGGTGCGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATGCCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAgcccgcc                                                                                                               >  2:1402413/1‑105 (MQ=255)

                                cTCCAAAGGTGCGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATGCCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAgcccgcc                                                                                                               <  1:1402413/105‑1 (MQ=255)

                                  ccAAAGGTGCGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATg                                                                           >  1:244783/1‑139 (MQ=255)

                                     aaGGTGCGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCg                                                                        <  1:1064126/139‑1 (MQ=255)

                                           cGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAgcccgc                                                                                                                <  1:138951/93‑1 (MQ=255)

                                           cGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAgcccgc                                                                                                                >  2:138951/1‑93 (MQ=255)

                                           cGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGc                                                                                                  >  2:365041/1‑107 (MQ=255)

                                           cGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGc                                                                                                  <  1:365041/107‑1 (MQ=255)

                                           cGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTc                                                                  >  2:52533/1‑139 (MQ=255)

                                                       caAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTg                                                      <  1:488721/139‑1 (MQ=255)

                                                       caAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTg                                                      <  2:244783/139‑1 (MQ=255)

                                                        aaGGGGACCTGGCTGGTTGCCGAATACCGTTAAAAGATATGTATATGAGCCGCGTTATAACCCTCAGCGCATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTgc                                                     >  2:145659/1‑139 (MQ=255)

                                                          ggggACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGaa                                                                                                                         <  1:303978/69‑1 (MQ=255)

                                                          ggggACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGaa                                                                                                                         >  2:303978/1‑69 (MQ=255)

                                                          ggggACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTgcgc                                                   >  2:1189536/1‑139 (MQ=255)

                                                          ggggACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTgcgc                                                   >  1:941550/1‑139 (MQ=255)

                                                            ggACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCtt                                                 <  2:461905/139‑1 (MQ=255)

                                                               ccTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCa                                              >  1:311048/1‑139 (MQ=255)

                                                                  ggctggTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAgcc                                                                                                                   >  2:1211208/1‑67 (MQ=255)

                                                                  ggctggTTGCCGAATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAgcc                                                                                                                   <  1:1211208/67‑1 (MQ=255)

                                                                    ctggTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTcc                                                                                                                              <  1:479640/54‑1 (MQ=255)

                                                                    ctggTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTcc                                                                                                                              >  2:479640/1‑54 (MQ=255)

                                                                    ctggTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTa                                         >  2:1335229/1‑139 (MQ=255)

                                                                      ggTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACg                                       <  2:25297/139‑1 (MQ=255)

                                                                      ggTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACg                                       <  2:311048/139‑1 (MQ=255)

                                                                        ttGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGAc                                                                                                    <  2:542221/76‑1 (MQ=255)

                                                                        ttGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGAc                                                                                                    >  1:542221/1‑76 (MQ=255)

                                                                                         aaGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCt                    <  1:940867/139‑1 (MQ=255)

                                                                                             tatGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCtt                                                 >  1:1379414/1‑106 (MQ=255)

                                                                                             tatGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCtt                                                 <  2:1379414/106‑1 (MQ=255)

                                                                                             tatGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCTTCgg                >  2:1106426/1‑139 (MQ=255)

                                                                                                      gATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCTTCGGCATAATCaa       >  1:843142/1‑139 (MQ=255)

                                                                                                      gATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCTTCGGCATAATCaa       >  1:281458/1‑139 (MQ=255)

                                                                                                        tCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCTTCGGCATAATCAATg     >  2:415601/1‑139 (MQ=255)

                                                                                                         ccGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCcgcg                                                                                                      >  1:587224/1‑41 (MQ=255)

                                                                                                         ccGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCcgcg                                                                                                      <  2:587224/41‑1 (MQ=255)

                                                                                                         ccGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCAt                                                                                             >  2:192743/1‑50 (MQ=255)

                                                                                                         ccGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCAt                                                                                             <  1:192743/50‑1 (MQ=255)

                                                                                                         ccGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCTTCGGCATAATCAATgc    >  2:615333/1‑139 (MQ=255)

                                                                                                          cgcgTTATAACCCTCCGCGAATCAGCCCGCCCATGCcgcg                                                                                                      >  2:1263189/1‑40 (MQ=255)

                                                                                                          cgcgTTATAACCCTCCGCGAATCAGCCCGCCCATGCcgcg                                                                                                      <  1:1263189/40‑1 (MQ=255)

                                                                                                          cgcgTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTg                                                      <  2:710283/88‑1 (MQ=255)

                                                                                                          cgcgTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTg                                                      >  1:710283/1‑88 (MQ=255)

                                                                                                           gcgtTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGc                                                                                                  >  2:217581/1‑43 (MQ=255)

                                                                                                           gcgtTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGc                                                                                                  <  1:217581/43‑1 (MQ=255)

                                                                                                           gcgtTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTc                                                              >  2:1170904/1‑79 (MQ=255)

                                                                                                           gcgtTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTc                                                              <  1:1170904/79‑1 (MQ=255)

                                                                                                           gcgtTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCTTCGGc               <  2:489399/126‑1 (MQ=255)

                                                                                                           gcgtTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCTTCGGc               >  1:489399/1‑126 (MQ=255)

                                                                                                           gcgtTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCTTCGGCATAATCAATgcgc  >  2:331430/1‑139 (MQ=255)

                                                                                                           gcgtTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCTTCGGCATAATCAATgcgc  >  2:1473127/1‑139 (MQ=255)

                                                                                                           gcgtTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCTTCGGCATAATCAATgc    <  1:1531080/137‑1 (MQ=255)

                                                                                                           gcgtTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCTTCGGCATAATCAATgc    >  2:1531080/1‑137 (MQ=255)

                                                                                                           gcgcTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGa                                                                                                     >  2:337253/1‑40 (MQ=255)

                                                                                                           gcgcTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGa                                                                                                     <  1:337253/40‑1 (MQ=255)

GCGATTGAAATGCGCGCCGCAGGTTTCAGGCGCTCCAAAGGTGCGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGCTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCTTCGGCATAATCAATGCGC  >  NC_000913/2966078‑2966323

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A