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
A9 F1 I1 R1	759	71.0	3673240	91.5%	3361014	104.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	568,004	G→A	289 (TAG→TAA)	insF1 →	IS3 transposase B

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	568,004	0	G	A	100.0%	100.1 / NA	36	289 (TAG→TAA)	insF1	IS3 transposase B
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (18/18); total (18/18)

GGGCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTATTACCGGTTCGCTACCAGAGA  >  NC_000913/567898‑568135

gggCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAAc                                                                                                     <  2:389235/139‑1 (MQ=11)

   cAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAg                                                                                                  >  2:1404959/1‑139 (MQ=17)

                  atatCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGc                                                                                   <  2:750768/139‑1 (MQ=255)

                     tCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGc                                                                                >  1:1667542/1‑139 (MQ=255)

                     tCGAATGTGATTACAATCGGTGGCGGCGGCACA‑‑‑GGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTaa                                                                             >  1:201094/1‑139 (MQ=17)

                        aaTGTGATTACAATCGGTGGCGGCGGCACAGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCt                                                                                     >  2:1323819/1‑131 (MQ=255)

                        aaTGTGATTACAATCGGTGGCGGCGGCACAGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCt                                                                                     <  1:1323819/131‑1 (MQ=255)

                          tgtgATTACAATCGGTGGCGGCGGCACAGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTaaaa                                                                           >  1:302460/1‑139 (MQ=255)

                              aTTACAATCGGTGGCGGCGGCACAGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGgc                                                                       >  2:550827/1‑139 (MQ=255)

                                  cAATCGGTGGCGGCGGCACAGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGCCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCgg                                                                   >  2:556121/1‑139 (MQ=255)

                                      cGGTGGCGGCGGCACAGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAAc                                                                                                     <  1:21622/101‑1 (MQ=11)

                                      cGGTGGCGGCGGCACAGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAAc                                                                                                     >  2:21622/1‑101 (MQ=11)

                                      cGGTGGCGGCGGCACAGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCAAATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAg                                                               >  2:402628/1‑139 (MQ=255)

                                        gTGGCGGCGGCACAGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGa                                                             >  1:911011/1‑139 (MQ=255)

                                         tGGCGGCGGCACAGTTGGTGGTGGCGGCCTCAGTCCGGAACAATTTGAAACCAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAAc                                                                                                     <  1:1315252/99‑1 (MQ=11)

                                         tGGCGGCGGCACAGTTGGTGGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAAc                                                                                                     >  2:1315252/1‑99 (MQ=11)

                                         tGGCGGCGGCACAGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAAc                                                                                                     <  1:1531246/98‑1 (MQ=14)

                                         tGGCGGCGGCACAGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAAc                                                                                                     >  2:1531246/1‑98 (MQ=14)

                                           gcggcggcACAGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATc                                                          <  1:1117784/139‑1 (MQ=255)

                                                    caGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGtt                                                 <  2:302460/139‑1 (MQ=255)

                                                     aGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTg                                                <  1:1404959/139‑1 (MQ=255)

                                                         ggT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGTGCGGGCAGGAATCCTGGTCGTTGATgg                                            >  2:474000/1‑139 (MQ=255)

                                                                gcggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGt                                      >  1:1586801/1‑139 (MQ=255)

                                                                gcggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGt                                      <  1:1540044/139‑1 (MQ=255)

                                                                  ggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTa                                          >  1:819121/1‑133 (MQ=255)

                                                                  ggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTa                                          <  2:819121/133‑1 (MQ=255)

                                                                  ggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGt                                      >  2:551558/1‑137 (MQ=255)

                                                                  ggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGt                                      <  1:551558/137‑1 (MQ=255)

                                                                      tCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCg                                >  2:1573344/1‑139 (MQ=255)

                                                                        aGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGaa                              <  2:911011/139‑1 (MQ=255)

                                                                        aGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGaa                              <  2:1667542/139‑1 (MQ=255)

                                                                        aGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGaa                              <  1:1573344/139‑1 (MQ=255)

                                                                                                   cTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTATTACCGGTTCGCTACCagag   <  1:621351/139‑1 (MQ=255)

                                                                                                    tCGCTTAAGCCTGTGTCCATATTACGTGCGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTATTACCGGTTCGCTACCAgaga  <  2:1098099/139‑1 (MQ=255)

                                                                                                     cGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGaa                              <  2:1128081/110‑1 (MQ=255)

                                                                                                     cGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGaa                              >  1:1128081/1‑110 (MQ=255)

GGGCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGT‑GTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTATTACCGGTTCGCTACCAGAGA  >  NC_000913/567898‑568135

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