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	913,349	G→A	L156L (CTG→TTG)	hcp ←	hybrid‑cluster [4Fe‑2S‑2O] subunit of anaerobic terminal reductases

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	913,349	0	G	A	100.0%	118.3 / NA	38	L156L (CTG→TTG)	hcp	hybrid‑cluster [4Fe‑2S‑2O] subunit of anaerobic terminal reductases
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (22/16); total (22/16)

CGTTCATATCGGCAGGCCAGGTCCCCAGCCACGCCATGATTTTATGGTACTGGGCATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGATCGTCGCTCACCAGTTGCAGGTCAGCCAT  >  NC_000913/913220‑913472

cgTTCATATCGGCAGGCCAGGTCCCCAGCCACGCCATGATTTTATGGTACTGGGCATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCAcagcag                                                                                                                    >  2:735413/1‑139 (MQ=255)

cgTTCATATCGGCAGGCCAGGTCCCCAGCCACGCCATGATTTTATGGTACTGGGCATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCAcagcag                                                                                                                    >  2:360590/1‑139 (MQ=255)

                                gCCATGATTTTATGGTACTGGGCATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATcgccg                                                                                    <  1:735413/139‑1 (MQ=255)

                                  cATGATTTTATGGTACTGGGCATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCt                                                                                  <  1:826257/139‑1 (MQ=255)

                                                    ggCATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCt                                                                                  >  2:745742/1‑121 (MQ=255)

                                                    ggCATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCt                                                                                  <  1:745742/121‑1 (MQ=255)

                                                    ggCATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAggg                                                                   <  2:74612/136‑1 (MQ=255)

                                                    ggCATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAggg                                                                   >  1:74612/1‑136 (MQ=255)

                                                    ggCATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTa                                                                >  2:371632/1‑139 (MQ=255)

                                                      cATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTaaa                                                              >  2:124324/1‑139 (MQ=255)

                                                         aaaTATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCa                                                                                                               >  1:598165/1‑87 (MQ=255)

                                                         aaaTATCGTTGCCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGATGCa                                                                                                               <  2:598165/87‑1 (MQ=255)

                                                               cGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCt                                                                                  <  1:393204/110‑1 (MQ=255)

                                                               cGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCt                                                                                  >  2:393204/1‑110 (MQ=255)

                                                                   gTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATc                                                                                        <  2:805122/100‑1 (MQ=255)

                                                                   gTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATc                                                                                        >  1:805122/1‑100 (MQ=255)

                                                                                 gaACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGcc                                   >  2:424096/1‑139 (MQ=255)

                                                                                      tGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCCGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGAt                              >  1:98208/1‑139 (MQ=255)

                                                                                      tGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGAt                              >  2:258731/1‑139 (MQ=255)

                                                                                                  atatAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCt                                                                                  <  2:823677/75‑1 (MQ=255)

                                                                                                  atatAGGCCGCCGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCt                                                                                  >  1:823677/1‑75 (MQ=255)

                                                                                                        gccgccGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCTGCTTTATCTTTGTTa                                                                      <  2:47310/81‑1 (MQ=255)

                                                                                                        gccgccGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCTGCTTTATCTTTGTTa                                                                      >  1:47310/1‑81 (MQ=255)

                                                                                                        gccgccGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGAt                              <  2:462957/121‑1 (MQ=255)

                                                                                                        gccgccGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGAt                              >  1:462957/1‑121 (MQ=255)

                                                                                                        gccgccGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGATCGTCGCTCACCAGTTGCa            >  1:213667/1‑139 (MQ=255)

                                                                                                        gccgccGCACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGATCGTCGCTCACCAGTTGCa            >  1:638078/1‑139 (MQ=255)

                                                                                                          cgccgcACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGATCGTCGCTCACCAGTTGCAgg          >  1:158657/1‑139 (MQ=255)

                                                                                                           gccgcACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATc                                                                             <  1:777572/71‑1 (MQ=255)

                                                                                                           gccgcACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATc                                                                             >  2:777572/1‑71 (MQ=255)

                                                                                                           gccgcACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTctg                                                         >  1:748987/1‑91 (MQ=255)

                                                                                                           gccgcACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTctg                                                         <  2:748987/91‑1 (MQ=255)

                                                                                                             cgcACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATcg                                                                                       <  2:689314/59‑1 (MQ=255)

                                                                                                             cgcACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATcg                                                                                       >  1:689314/1‑59 (MQ=255)

                                                                                                             cgcACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGATCGTCGCTCAc                    >  2:802873/1‑126 (MQ=255)

                                                                                                             cgcACCTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGATCGTCGCTCAc                    <  1:802873/126‑1 (MQ=255)

                                                                                                                  cTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGATCGTCGCTCACCAGTTGCAGGTCAGCCAt  <  1:258731/139‑1 (MQ=255)

                                                                                                                  cTTTCAGGCCATACAAGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGATCGTCGCTCACCAGTTGCAGGTCAGCCAt  <  1:371632/139‑1 (MQ=255)

CGTTCATATCGGCAGGCCAGGTCCCCAGCCACGCCATGATTTTATGGTACTGGGCATAAATATCGTTGTCGTATTGACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTCTGCTGCCTGACGTTGCAGCTCGCCGAGATCGTCGCTCACCAGTTGCAGGTCAGCCAT  >  NC_000913/913220‑913472

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