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
A9 F1 I2 R1	760	52.7	2744488	90.2%	2475528	105.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,136,603	(G)_6→7	coding (496/906 nt)	yijE →	EamA‑like transporter family protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,136,597	1	.	G	100.0%	120.1 / NA	34	W164G (TGG→GGG)	yijE	EamA‑like transporter family protein
Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (18/16); total (18/16)

ACGTGGGCAATATTTCGCGATTCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTT‑GGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTATGCGGCGCTGGTGATGAGTGTGGTCGCTTTACT  >  NC_000913/4136476‑4136718

aCGTGGGCAATATTTCGCGATTCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGAt                                                                                                           >  2:399956/1‑139 (MQ=255)

   tGGGCAATATTTCGCGATTCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGAttgt                                                                                                        >  1:1349438/1‑139 (MQ=255)

                gcgATTCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTg                                                                                           >  2:14684/1‑139 (MQ=255)

                              cGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATcc                                                                             >  1:136345/1‑139 (MQ=255)

                              cGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATcc                                                                             >  2:1324493/1‑139 (MQ=255)

                                   tCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCCATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCcgcgcg                                                                        >  1:797979/1‑139 (MQ=255)

                                           tttttGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTa                                                                <  1:1324493/139‑1 (MQ=255)

                                                     tGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTaa                                                      >  1:960334/1‑139 (MQ=255)

                                                            gTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTa                                                                <  1:1301531/122‑1 (MQ=255)

                                                            gTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTa                                                                >  2:1301531/1‑122 (MQ=255)

                                                                cAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAg                                           <  2:765127/139‑1 (MQ=255)

                                                                    tCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGAtt                                                                                                          <  2:525749/72‑1 (MQ=255)

                                                                    tCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGAtt                                                                                                          >  1:525749/1‑72 (MQ=255)

                                                                    tCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGc                                       <  2:960334/139‑1 (MQ=255)

                                                                        tttCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTa                                   >  2:617473/1‑139 (MQ=255)

                                                                        tttCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTa                                   >  2:1304728/1‑139 (MQ=255)

                                                                         ttCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTAt                                  <  2:136345/139‑1 (MQ=255)

                                                                               tCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTATgcggcg                            <  1:14684/139‑1 (MQ=255)

                                                                                cGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGa                                                                                                            >  2:1082515/1‑58 (MQ=255)

                                                                                cGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGa                                                                                                            <  1:1082515/58‑1 (MQ=255)

                                                                                 gATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTATGCGGCGCt                          <  2:1349438/139‑1 (MQ=255)

                                                                                             cATGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTATGCGGCGCTGGTGATGAgtgt              <  1:399956/139‑1 (MQ=255)

                                                                                               tGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTc                                                           >  2:755652/1‑92 (MQ=255)

                                                                                               tGCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTc                                                           <  1:755652/92‑1 (MQ=255)

                                                                                                gCTGGCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTATGCGGCGCTGGTGATGAGTGTGGt           <  1:617473/139‑1 (MQ=255)

                                                                                                    gctaTCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTa                                                                <  1:828030/79‑1 (MQ=255)

                                                                                                    gCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGAttgt                                                                                                        >  2:1145681/1‑42 (MQ=255)

                                                                                                    gCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGAttgt                                                                                                        <  1:1145681/42‑1 (MQ=38)

                                                                                                    gCAATCCTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTa                                                                >  2:828030/1‑82 (MQ=255)

                                                                                                         ccTCTCCGGCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTATGCGGCGCTGGTGATGAGTGTGGTCGCTTTACt  >  2:1188106/1‑139 (MQ=255)

                                                                                                                ggCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCcgcgcg                                                                        >  1:840213/1‑62 (MQ=255)

                                                                                                                ggCGTCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCcgcgcg                                                                        <  2:840213/62‑1 (MQ=255)

                                                                                                                    tCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTATGCGGCGCTGGTGATGAGTGTGGt           <  2:286671/119‑1 (MQ=255)

                                                                                                                    tCAGTTGGGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTATGCGGCGCTGGTGATGAGTGTGGt           >  1:286671/1‑119 (MQ=255)

ACGTGGGCAATATTTCGCGATTCTGATTGCCGCTTTCGGCTTATTTTTGGTGTTGCAGCCGTGGCAACTCGATTTCTCTTCGATGAAAAGTGCCATGCTGGCAATCCTCTCCGGCGTCAGTT‑GGGGGGCGAGCGCGATTGTTGCTAAACGTCTGTATGCCCGTCATCCGCGCGTGGATTTATTGTCGTTAACATCCTGGCAGATGCTGTATGCGGCGCTGGTGATGAGTGTGGTCGCTTTACT  >  NC_000913/4136476‑4136718

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