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 I1 R1	781	46.9	2231650	93.5%	2086592	109.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,769,478	(G)_7→8	coding (405/1113 nt)	ydiK →	UPF0118 family inner membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,769,471	1	.	G	100.0%	98.4 / NA	28	M133R (ATG→AGG)	ydiK	UPF0118 family inner membrane protein
Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (11/17); total (11/17)

CAGTATCGTCGACGGCAGCGGCCCGCTAATTAAAGCCATTTCCAGCGGTGACATGACGTTACCCGATCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATAT‑GGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTGCATTGTGCGCTGATGCTTCTCTTCAGTGC  >  NC_000913/1769334‑1769597

cAGTATCGTCGACGGCAGCGGCCCGCTAATTAAAGCCATTTCCAGCGGTGACATGACGTTACCCGATCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATAT‑g                                                                                                                               <  1:1050102/139‑1 (MQ=255)

     tcgtcgACGGCAGCGGCCCGCTAATTAAAGCCATTTCCAGCGGTGACATGACGTTACCCGATCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATAT‑gggggg                                                                                                                          >  2:257620/1‑139 (MQ=255)

     tcgtcgACGGCAGCGGCCCGCTAATTAAAGCCATTTCCAGCGGTGACATGACGTTACCCGATCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATAT‑gggggg                                                                                                                          >  1:909476/1‑139 (MQ=255)

                            aTTAAAGCCATTTCCAGCGGTGACATGACGTTACCCGATCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTc                                                                                                    <  1:67796/139‑1 (MQ=255)

                                aaGCCATTTCCAGCGGTGACATGACGTTACCCGATCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCTGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGcc                                                                                                <  2:736012/139‑1 (MQ=255)

                                                    gtGACGTTACCCGATCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGcaccaccacc                                                                            <  1:553510/138‑1 (MQ=255)

                                                                                aTACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCata                                                >  2:130266/1‑139 (MQ=255)

                                                                                 tACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGcaccacc                                                                               >  2:514978/1‑107 (MQ=255)

                                                                                 tACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGcaccacc                                                                               <  1:514978/107‑1 (MQ=255)

                                                                                     aTTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCggg                                           <  2:594868/139‑1 (MQ=255)

                                                                                      ttCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGTGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGgc                                          >  2:653147/1‑139 (MQ=255)

                                                                                         cGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCt                                       <  2:899455/139‑1 (MQ=255)

                                                                                         cGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGAGCGCt                                       <  2:909476/139‑1 (MQ=255)

                                                                                           gTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTc                                                                                                    >  2:184306/1‑76 (MQ=255)

                                                                                           gTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTc                                                                                                    <  1:184306/76‑1 (MQ=255)

                                                                                           gTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTgg                                                                                      <  1:324106/90‑1 (MQ=255)

                                                                                           gTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTgg                                                                                      >  2:324106/1‑90 (MQ=255)

                                                                                                tGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGt                                >  2:610101/1‑139 (MQ=255)

                                                                                                   cgcgAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTGCa                             <  1:511198/139‑1 (MQ=255)

                                                                                                   cgcgAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTGCa                             <  1:257620/139‑1 (MQ=255)

                                                                                                        aGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCgg                                            >  2:984826/1‑119 (MQ=255)

                                                                                                        aGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCgg                                            <  1:984826/119‑1 (MQ=255)

                                                                                                              aTGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTGCATTGTGCGCTGa                  <  1:225057/139‑1 (MQ=255)

                                                                                                                    gCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACGACCACCTGGTTCGTTGGGCAg                                                          <  2:669351/93‑1 (MQ=255)

                                                                                                                    gCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAg                                                          >  1:669351/1‑93 (MQ=255)

                                                                                                                       ggCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTGCATTGTGCGCTGa                  <  2:487679/130‑1 (MQ=255)

                                                                                                                       ggCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTGCATTGTGCGCTGa                  >  1:487679/1‑130 (MQ=255)

                                                                                                                       ggCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTGCATTGTGCGCTGATGCTTctct         >  1:205050/1‑139 (MQ=255)

                                                                                                                             aCTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTGCATTGTGCGCTGATGCTTCTCTTCAGTg   <  1:610101/139‑1 (MQ=255)

                                                                                                                             aCTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTGCATTGTGCGCTGATGCTTCTCTTCAGTg   <  2:94556/139‑1 (MQ=255)

                                                                                                                              cTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTGCATTGTGCGCTGATGCTTCTCTTCAGTGc  >  1:418308/1‑139 (MQ=255)

CAGTATCGTCGACGGCAGCGGCCCGCTAATTAAAGCCATTTCCAGCGGTGACATGACGTTACCCGATCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATAT‑GGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTGCATTGTGCGCTGATGCTTCTCTTCAGTGC  >  NC_000913/1769334‑1769597

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 28 ≤` `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