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	2,184,452	G→A	A22V (GCC→GTC)	thiD ←	hydroxy‑methylpyrimidine kinase and hydroxy‑phosphomethylpyrimidine kinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,184,452	0	G	A	100.0%	103.9 / NA	32	A22V (GCC→GTC)	thiD	hydroxy‑methylpyrimidine kinase and hydroxy‑phosphomethylpyrimidine kinase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (16/16); total (16/16)

CGAATCGAGCTGGGCGGCGACAAAATCAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGGCCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGCCTGCACCTCCTGCGTCAATTGCCAGAGCGCATCAAGGAAATGTGGAACAAAACT  >  NC_000913/2184319‑2184572

cGAATCGAGCTGGGCGGCGACAAAATCAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGa                                                                                                                     >  1:264393/1‑139 (MQ=255)

  aaTCGAGCTGGGCGGCGACAAAATCAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAAt                                                                                                                   <  1:332982/139‑1 (MQ=255)

  aaTCGAGCTGGGCGGCGACAAAATCAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAAt                                                                                                                   <  1:40892/139‑1 (MQ=255)

    tCGAGCTGGGCGGCGACAAAATCAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATcc                                                                                                                 <  2:264393/139‑1 (MQ=255)

            ggcggcGACAAAATCAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGcacca                                                                                                         <  1:404081/139‑1 (MQ=255)

                 cgACAAAATCAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACt                                                                                                    >  2:359613/1‑139 (MQ=255)

                          cAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGt                                                                                           <  1:271466/139‑1 (MQ=255)

                                             cGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCg                                                                        >  2:139474/1‑139 (MQ=255)

                                             cGAATGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCg                                                                        <  2:589027/139‑1 (MQ=255)

                                                       ccACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGCATCAGTACCGGCAATCCTCAGAGCGTTAATTCGtt                                                              >  1:729526/1‑139 (MQ=255)

                                                                     cgcCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTAc                                                                                         >  1:379359/1‑98 (MQ=255)

                                                                     cgcCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTAc                                                                                         <  2:379359/98‑1 (MQ=255)

                                                                     cgcCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGCCTGCAcct                                                >  2:847100/1‑139 (MQ=255)

                                                                       ccaccaGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGcc                                                       >  1:335197/1‑130 (MQ=255)

                                                                       ccaccaGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGcc                                                       <  2:335197/130‑1 (MQ=255)

                                                                                        aCTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTg                                                                                                                      >  2:730378/1‑50 (MQ=255)

                                                                                        aCTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTg                                                                                                                      <  1:730378/50‑1 (MQ=255)

                                                                                        aCTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGCCTGCACCTCCTg                                            >  2:207415/1‑124 (MQ=255)

                                                                                        aCTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGCCTGCACCTCCTg                                            <  1:207415/124‑1 (MQ=255)

                                                                                          tGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGCCTGCACCTCCTGCGTc                                        >  1:44957/1‑126 (MQ=255)

                                                                                          tGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGCCTGCACCTCCTGCGTc                                        <  2:44957/126‑1 (MQ=255)

                                                                                                 ccATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCa                                                                             >  1:772834/1‑82 (MQ=255)

                                                                                                 ccATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCa                                                                             <  2:772834/82‑1 (MQ=255)

                                                                                                  cATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGCCTGCACCTCCTGCGTCAATTGCCAGAGCGCATCAAgg                   <  1:139474/139‑1 (MQ=255)

                                                                                                      aGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCACGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGCCTGCACCTCCTGCGTCAATTGCCAGAGCGCATCAAGGAAAt               >  1:432216/1‑139 (MQ=255)

                                                                                                        cgcCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGa                                                                                                <  1:642716/56‑1 (MQ=255)

                                                                                                        cgcCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGa                                                                                                >  2:642716/1‑56 (MQ=255)

                                                                                                           cAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACt                                                                                                    <  1:451542/49‑1 (MQ=255)

                                                                                                           cAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACt                                                                                                    >  2:451542/1‑49 (MQ=255)

                                                                                                           cAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCa                                                           <  1:677423/90‑1 (MQ=255)

                                                                                                           cAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCa                                                           >  2:677423/1‑90 (MQ=255)

                                                                                                                   gagaAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGCCTGCACCTCCTGCGTCAATTGCCAGAGCGCATCAAGGAAATGTGGAACAAAACt  >  1:348810/1‑139 (MQ=255)

CGAATCGAGCTGGGCGGCGACAAAATCAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGGCCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGCCTGCACCTCCTGCGTCAATTGCCAGAGCGCATCAAGGAAATGTGGAACAAAACT  >  NC_000913/2184319‑2184572

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A