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
A10 F1 I1 R1	77	35.1	1569012	96.6%	1515665	112.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,581,323	G→A	T401I (ACA→ATA)	ydeN ←	putative Ser‑type periplasmic non‑aryl sulfatase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,581,323	0	G	A	100.0%	124.4 / NA	36	T401I (ACA→ATA)	ydeN	putative Ser‑type periplasmic non‑aryl sulfatase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (16/20); total (16/20)

TATCCAGGTCAGATTTTTATGTGGCTCGCCTTGTTTCTTATCTTGCAACCAGGGCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTGTCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACATAAACATTGGGGTGTGAGTACCGCCAGGATAGGTCTGACTCTTATAGCCTTTTTGCGCCC  >  NC_000913/1581205‑1581452

tATCCAGGTCAGATTTTTATGTGGCTCGCCTTGTTTCTTATCTTGCAACCAGGGCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCg                                                                                                               >  2:496245/1‑139 (MQ=255)

tATCCAGGTCAGATTTTTATGTGGCTCGCCTTGTTTCTTATCTTGCAACCAGGGCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCg                                                                                                               >  2:417655/1‑139 (MQ=255)

  tCCAGGTCAGATTTTTATGTGGCTCGCCTTGTTTCTTATCTTGCAACCAGGGCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGa                                                                                                             >  1:605104/1‑139 (MQ=255)

         cAGATTTTTATGTGGCTCGCCTTGTTTCTTATCTTGCAACCAGGGCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGc                                                                                                      <  1:425787/139‑1 (MQ=255)

          aGATTTTTATGTGGCTCGCCTTGTTTCTTATCTTGCAACCAGGGCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCt                                                                                                     <  2:703886/139‑1 (MQ=255)

                 tATGTGGCTCGCCTTGTTTCTTATCTTGCAACCAGGGCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATa                                                                                              >  2:312491/1‑139 (MQ=255)

                      ggCTCGCCTTGTTTCTTATCTTGCAACCAGGGCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTAc                                                                                         >  2:243080/1‑139 (MQ=255)

                                           tGCAACCAGGGCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTtttcctttcc                                                                    >  1:226684/1‑139 (MQ=255)

                                           tGCAACCAGGGCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTtttcctttcc                                                                    <  1:312491/139‑1 (MQ=255)

                                           tGCAACCAGGGCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTtttcctttcc                                                                    <  1:417655/139‑1 (MQ=255)

                                           tGCAACCAGGGCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCACCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTtttcctttcc                                                                    <  1:590313/139‑1 (MQ=255)

                                            gCAACCAGGGCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTcca                                                                   <  1:496245/139‑1 (MQ=255)

                                             cAACCAGGGCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTAc                                                                                         >  1:205488/1‑116 (MQ=255)

                                             cAACCAGGGCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTAc                                                                                         <  2:205488/116‑1 (MQ=255)

                                             cAACCAGGGCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTccac                                                                  <  1:243080/139‑1 (MQ=255)

                                                  aGGGCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACAt                                                             <  2:172916/139‑1 (MQ=255)

                                                    ggCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACAt                                                             >  1:444204/1‑137 (MQ=255)

                                                    ggCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACAt                                                             <  2:444204/137‑1 (MQ=255)

                                                    ggCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACATaa                                                           <  2:226684/139‑1 (MQ=255)

                                                          aaGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACATAAACATTg                                                     <  2:164133/139‑1 (MQ=255)

                                                           aGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACATAAACATTgg                                                    <  1:351832/139‑1 (MQ=255)

                                                              aaaCGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGTAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACATAAACATTGGGgt                                                 >  2:480232/1‑139 (MQ=255)

                                                              aaaCGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACATAAACATTGGGgt                                                 >  1:126705/1‑139 (MQ=255)

                                                                                     tttGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTccac                                                                  >  2:425836/1‑99 (MQ=255)

                                                                                     tttGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTccac                                                                  <  1:425836/99‑1 (MQ=255)

                                                                                     tttGGAATGCTGATATCGGCTGCATCAAGAGCTATC‑GGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACATAAACATTGGGGTGTGAGTACCGCCAGGATAGGTCTg                         >  2:762999/1‑139 (MQ=255)

                                                                                      ttGGAATGCTGATATCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACATAAACATTGGGGTGTGAGTACCGCCAGGATAGGTCTg                         <  1:408173/139‑1 (MQ=255)

                                                                                                 atatCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACATAAACATTGGGGTGTGAGTACCGc                                      >  1:682220/1‑115 (MQ=255)

                                                                                                 atatCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACATAAACATTGGGGTGTGAGTACCGc                                      <  2:682220/115‑1 (MQ=255)

                                                                                                 atatCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACATAAACATTGGGGTGTGAGTACCGCCAGGATAGGTCTGACTCTTATAGc              >  2:275456/1‑139 (MQ=255)

                                                                                                  tatCGGCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACATAAACATTGGGGTGTGAGTACCGCCAGGATAGGTCTGACTCTTATAGcc             <  2:33618/139‑1 (MQ=255)

                                                                                                      ggCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACATAAACATTGGGGTGTGAGt                                           <  1:695142/105‑1 (MQ=255)

                                                                                                      ggCTGCATCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACATAAACATTGGGGTGTGAGt                                           >  2:695142/1‑105 (MQ=255)

                                                                                                        cTGCATCAACAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACAt                                                             >  1:525285/1‑85 (MQ=255)

                                                                                                        cTGCATCAAAAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTTCTTTCCACCACAt                                                             <  2:525285/85‑1 (MQ=255)

                                                                                                             tCAAGAGCTATCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACATAAACATTGGGGTGTGAGTACCGCCAGGATAGGTCTGACTCTTATAGCCTTTTTGCGccc  <  1:594623/139‑1 (MQ=255)

TATCCAGGTCAGATTTTTATGTGGCTCGCCTTGTTTCTTATCTTGCAACCAGGGCAGCAAGGAAACGCCATCCAGCTTAAGGTCTTTTGGAATGCTGATATCGGCTGCATCAAGAGCTGTCGGGTAGAAATCCATTGCGGAAATCAGCTTGTCATAATTACCGGGTTGAAGTTTTCCTTTCCACCACATAAACATTGGGGTGTGAGTACCGCCAGGATAGGTCTGACTCTTATAGCCTTTTTGCGCCC  >  NC_000913/1581205‑1581452

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `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