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
A4 F1 I1 R1	765	39.6	1867486	94.4%	1762906	108.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,325,152	A→G	I5T (ATC→ACC)	phnC ←	phosphonate ABC transporter ATPase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,325,152	0	A	G	100.0%	125.7 / NA	36	I5T (ATC→ACC)	phnC	phosphonate ABC transporter ATPase
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (18/18); total (18/18)

TAAAAGGGTGGATTTTCCGGAACCCGACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGATAATCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGAAGAGTTAACGGGAATTCGATGACA  >  NC_000913/4325025‑4325270

tAAAAGGGTGGATTTTCCGGAACCCGACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGc                                                                                                              <  2:317307/139‑1 (MQ=255)

        tGGATTTTCCGGAACCCGACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGt                                                                                                                  <  2:478461/127‑1 (MQ=255)

        tGGATTTTCCGGAACCCGACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGt                                                                                                                  >  1:478461/1‑127 (MQ=255)

         ggATTTTCCGGAACCCGACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAg                                                                                                     >  2:340899/1‑139 (MQ=255)

          gATTTTCCGGAACCCGACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGc                                                                                                    <  1:388585/139‑1 (MQ=255)

                                    cAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTg                                                                         <  1:841976/139‑1 (MQ=255)

                                    cAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTg                                                                         <  1:723032/139‑1 (MQ=255)

                                        gCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTGGCgg                                                                     >  2:720826/1‑139 (MQ=255)

                                            ccaTTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGc                                                                                                              <  1:425805/95‑1 (MQ=255)

                                            ccaTTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGc                                                                                                              >  2:425805/1‑95 (MQ=255)

                                               tttCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTa                                                                                                                       >  1:117621/1‑83 (MQ=255)

                                               tttCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTa                                                                                                                       <  2:117621/83‑1 (MQ=255)

                                                       tgatgaATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTACTCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGAtt                                                      >  1:448644/1‑139 (MQ=255)

                                                          tgaATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTgg                                                   <  1:340899/139‑1 (MQ=255)

                                                                   aGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGc                                                                                                              <  1:279164/72‑1 (MQ=255)

                                                                   aGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGc                                                                                                              >  2:279164/1‑72 (MQ=255)

                                                                     aTCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCT‑aaaaaa                                                                                       <  1:834000/92‑1 (MQ=255)

                                                                     aTCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCT‑aaaaaa                                                                                       >  2:834000/1‑92 (MQ=255)

                                                                          ccGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCAt                                                                             >  1:308021/1‑97 (MQ=255)

                                                                          ccGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCAt                                                                             <  2:308021/97‑1 (MQ=255)

                                                                          ccGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTgg                                                   <  1:488751/123‑1 (MQ=255)

                                                                          ccGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTgg                                                   >  2:488751/1‑123 (MQ=255)

                                                                          ccGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACt                                   >  2:892990/1‑139 (MQ=255)

                                                                                    cgcCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGaa                         <  1:441556/139‑1 (MQ=255)

                                                                                    cgcCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGaa                         >  1:268786/1‑139 (MQ=255)

                                                                                    cgcCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTAGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGaa                         >  1:646031/1‑139 (MQ=255)

                                                                                              tGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGAt                                                       <  2:216437/99‑1 (MQ=255)

                                                                                              tGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGAt                                                       >  1:216437/1‑99 (MQ=255)

                                                                                                  tGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGAAGAGTTAACggg              >  1:511971/1‑136 (MQ=255)

                                                                                                  tGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGAAGAGTTAACggg              <  2:511971/136‑1 (MQ=255)

                                                                                                    aaGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGAAGAGTTAACGGGAATTc         >  2:214196/1‑139 (MQ=255)

                                                                                                     aGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGaa                         <  1:142075/123‑1 (MQ=255)

                                                                                                     aGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAAGTGGCTCCATCGTGGCGGATTATGGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGaa                         >  2:142075/1‑123 (MQ=255)

                                                                                                           tGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGAAGAGTTAACGGGAATTCGATGACa  <  2:268786/139‑1 (MQ=255)

                                                                                                                 gCTTCTCGACACGGGTAATTGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACt                                   >  2:33898/1‑100 (MQ=255)

                                                                                                                 gCTTCTCGACACGGGTAATTGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACt                                   <  1:33898/100‑1 (MQ=255)

TAAAAGGGTGGATTTTCCGGAACCCGACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGATAATCGTTTGCATGATGCAGCCTCCCT‑AAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGAAGAGTTAACGGGAATTCGATGACA  >  NC_000913/4325025‑4325270

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