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
A3 F1 I2 R1	58	36.1	1832140	90.7%	1661750	105.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,457,094	A→G	I240V (ATC→GTC)	gspD →	general secretory pathway component, cryptic

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,457,094	0	A	G	100.0%	123.9 / NA	33	I240V (ATC→GTC)	gspD	general secretory pathway component, cryptic
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (16/17); total (16/17)

TCTGGAATATGCGTCAGCGGAAGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTATCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTG  >  NC_000913/3456964‑3457219

tCTGGAATATGCGTCAGCGGAAGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGt                                                                                                                       <  2:145731/139‑1 (MQ=255)

          gCGTCAGCGGAAGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGaaa                                                                                                             >  1:236182/1‑139 (MQ=255)

               aGCGGAAGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGaaa                                                                                                             <  2:37782/134‑1 (MQ=255)

               aGCGGAAGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGaaa                                                                                                             >  1:37782/1‑134 (MQ=255)

                  ggAAGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGc                                                                                                     <  2:236182/139‑1 (MQ=255)

                        tctcGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAgcgc                                                                                               >  1:642563/1‑139 (MQ=255)

                          tcGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCAt                                                                                             <  2:468810/139‑1 (MQ=255)

                            gCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCa                                                                                           <  2:449545/139‑1 (MQ=255)

                                             aTTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGc                                                                          >  2:699181/1‑139 (MQ=255)

                                              ttAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGa                                                                                                                    <  1:440196/96‑1 (MQ=255)

                                              ttAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGa                                                                                                                    >  2:440196/1‑96 (MQ=255)

                                                 aTCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTg                                                                      <  1:699181/139‑1 (MQ=255)

                                                                  tAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGag                                                     <  2:642563/139‑1 (MQ=255)

                                                                     aaGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGa                                                                                                                    <  2:632427/73‑1 (MQ=255)

                                                                     aaGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGa                                                                                                                    >  1:632427/1‑73 (MQ=255)

                                                                                 aGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCt                                                                        >  2:668817/1‑105 (MQ=255)

                                                                                 aGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCt                                                                        <  1:668817/105‑1 (MQ=255)

                                                                                     ctcctcTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCa                                                                                           >  1:788699/1‑82 (MQ=255)

                                                                                     ctcctcTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCa                                                                                           <  2:788699/82‑1 (MQ=255)

                                                                                      tcctcTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCAt                                                                                             <  1:722014/79‑1 (MQ=255)

                                                                                      tcctcTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCAt                                                                                             >  2:722014/1‑79 (MQ=255)

                                                                                      tcctcTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTg                                                                      <  1:632008/102‑1 (MQ=255)

                                                                                      tcctcTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTg                                                                      >  2:632008/1‑102 (MQ=255)

                                                                                          ctcCGCGAAGATTGTGTCGGGGAAGCGAACTAACTCCGTTGTCATCACCGGACCGAAAGATGCACGCCTGTTCACTACTCCATTACTGAATAGCATTGATGTCGACGAGAGCGATGAGGGAACTACCCGGCTttatatc                             >  1:36949/1‑136 (MQ=255)

                                                                                          ctcCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTAc                             >  2:827191/1‑139 (MQ=255)

                                                                                               cgAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTTATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGaa                        <  2:198724/139‑1 (MQ=255)

                                                                                                  aGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCAt                                                                                             <  2:506931/67‑1 (MQ=255)

                                                                                                  aGATTGTGGCGGATAAGCAAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCAt                                                                                             >  1:506931/1‑67 (MQ=255)

                                                                                                              aTAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCa                                                                                           <  2:378397/57‑1 (MQ=255)

                                                                                                              aTAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCa                                                                                           >  1:378397/1‑57 (MQ=255)

                                                                                                              aTAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGaggaagga                                               >  2:370220/1‑101 (MQ=255)

                                                                                                              aTAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGaggaagga                                               <  1:370220/101‑1 (MQ=255)

                                                                                                                     aaCCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCtg  >  2:914906/1‑139 (MQ=255)

TCTGGAATATGCGTCAGCGGAAGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTATCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTG  >  NC_000913/3456964‑3457219

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