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
A13 F1 I1 R1	778	68.7	3228504	93.4%	3015422	109.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,606,456	G→T	S2S (TCG→TCT)	zntA →	zinc, cobalt and lead efflux system

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,606,456	0	G	T	100.0%	155.3 / NA	48	S2S (TCG→TCT)	zntA	zinc, cobalt and lead efflux system
Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (27/21); total (27/21)

CGGCCTGCTACTTTGCCGGTCACTTCCTGATCGTCCGCTCGCTGTATCTCTGATAAAACTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCGACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTACAGAACGCCAACGACTGTTGCTGCGACGGCGCATGTTCCAGCACGCCAACTCTCTCTGAAAACGTCTCCGGC  >  NC_000913/3606325‑3606591

cGGCCTGCTACTTTGCCGGTCACTTCCTGATCGTCCGCTCGCTGTATCTCTGATAAAACTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTg                                                                                                                                  >  2:746712/1‑139 (MQ=255)

     tGCTACTTTGCCGGTCACTTCCTGATCGTCCGCTCGCTGTATCTCTGATAAAACTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAAt                                                                                                                             <  2:995556/139‑1 (MQ=255)

     tGCTACTTTGCCGGTCACTTCCTGATCGTCCGCTCGCTGTATCTCTGATAAAACTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAAt                                                                                                                             >  2:1484114/1‑139 (MQ=255)

     tGCTACTTTGCCGGTCACTTCCTGATCGTCCGCTCGCTGTATCTCTGATAAAACTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAAt                                                                                                                             <  1:1484114/139‑1 (MQ=255)

     tGCTACTTTGCCGGTCACTTCCTGATCGTCCGCTCGCTGTATCTCTGATAAAACTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAAt                                                                                                                             <  1:746712/139‑1 (MQ=255)

               ccGGTCACTTCCTGATCGTCCGCTCGCTGTATCTCTGATAAAACTTGGCTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAAt                                                                                                                             <  1:951362/129‑1 (MQ=255)

               ccGGTCACTTCCTGATCGTCCGCTCGCTGTATCTCTGATAAAACTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAAt                                                                                                                             >  2:951362/1‑129 (MQ=255)

                 ggTCACTTCCTGATCGTCCGCTCGCTGTATCTCTGATAAAACTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGaaa                                                                                                                 >  2:41411/1‑139 (MQ=255)

                    cACTTCCTGATCGTCCGCTCGCTGTATCTCTGATAAAACTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGcc                                                                                                              <  1:1268451/139‑1 (MQ=255)

                                 tCCGCTCGCTGTATCTCTGATAAAACTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTtgctg                                                                                                 >  2:1209219/1‑139 (MQ=255)

                                 tCCGCTCGCTGTATCTCTGATAAAACTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTtgctg                                                                                                 >  1:807398/1‑139 (MQ=255)

                                 tCCGCTCACTGTATCTCTGATAAAACTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGcccc                                                                                                            >  1:1073715/1‑128 (MQ=255)

                                 tCCGCTCACTGTATCTCTGATAAAACTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGcccc                                                                                                            <  2:1073715/128‑1 (MQ=255)

                                    gctcgctGTATCTCTGATAAAACTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGt                                                                                              >  1:1387743/1‑139 (MQ=255)

                                                 ctGATAAAACTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAAc                                                                                 <  1:1209219/139‑1 (MQ=255)

                                                  tGATAAAACTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAAcc                                                                                <  2:807398/139‑1 (MQ=255)

                                                    aTAAAACTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAAt                                                                                                                             >  1:5407/1‑92 (MQ=255)

                                                    aTAAAACTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAAt                                                                                                                             <  2:5407/92‑1 (MQ=255)

                                                         aCTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTAc                                                                         >  2:1504494/1‑139 (MQ=255)

                                                            acaCTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAAt                                                                                                                             >  2:1502562/3‑84 (MQ=255)

                                                            acaCTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAAt                                                                                                                             <  1:1502562/82‑1 (MQ=255)

                                                                  tGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTACAGaa                                                                     <  1:1439666/134‑1 (MQ=255)

                                                                  tGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTACAGaa                                                                     >  2:1439666/1‑134 (MQ=255)

                                                                      gTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTACAGAACGCCAACGa                                                            <  2:1387743/139‑1 (MQ=255)

                                                                          aCTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTACAGAACGCCAACGACTGt                                                        <  1:682834/139‑1 (MQ=255)

                                                                               agagTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTACAGa                                                                      <  1:314644/120‑1 (MQ=255)

                                                                               agagTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTACAGa                                                                      >  2:314644/1‑120 (MQ=255)

                                                                                        ccTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTACAGAACGCCAACGACTGTTGCTGCGACGgcgc                                          >  2:520149/1‑139 (MQ=255)

                                                                                           tCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGcc                                                                                                              >  1:224542/1‑68 (MQ=255)

                                                                                           tCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGcc                                                                                                              <  2:224542/68‑1 (MQ=255)

                                                                                            cGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTACAGAACGCCAACGACTGTTGCTGCGACGGCGCATGt                                      >  2:1151991/1‑139 (MQ=255)

                                                                                             ggTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAg                                                                                                                >  2:456294/1‑64 (MQ=255)

                                                                                             ggTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAg                                                                                                                <  1:456294/64‑1 (MQ=255)

                                                                                             ggTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTACAGAACGCCAACGACTGTTGCTGCGACGGCGCATGtt                                     >  1:239919/1‑139 (MQ=255)

                                                                                             ggTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTACAGAACGCCAACGACTGTTGCTGCGACGGCGCATGtt                                     >  2:620988/1‑139 (MQ=255)

                                                                                               ttAATGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTACAGAACGCCAACGACTGTTGCTGCGACGGCGCATGTTcc                                   >  1:1283034/1‑139 (MQ=255)

                                                                                                 aaTGAGAAAAAACTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTACAGAACGCCAACGACTGTTGCTGCGACGGCGCATGTTCCAg                                 >  1:859873/1‑139 (MQ=255)

                                                                                                        aaaaaCTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGcccc                                                                                                            >  1:792644/1‑57 (MQ=255)

                                                                                                        aaaaaCTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGcccc                                                                                                            <  2:792644/57‑1 (MQ=255)

                                                                                                            aCTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGcc                                                                                                              >  1:1391686/1‑51 (MQ=255)

                                                                                                            aCTTAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGcc                                                                                                              <  2:1391686/51‑1 (MQ=255)

                                                                                                               tAACCGGAGGATGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTACAGAACGCCAACGACTGTTGCTGCGACGGCGCATGTTCCAGCATGCCAActctct                   >  2:463544/1‑139 (MQ=255)

                                                                                                                      aggaTGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTACAGAACGCCAACGACTGTTGCTGCGACGGCGCATGTTCCAGCACGCCAACTCTCTCTGaaaa            >  2:711905/1‑139 (MQ=255)

                                                                                                                        gaTGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCt                                                                                    >  2:1440720/1‑65 (MQ=255)

                                                                                                                        gaTGCCATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCt                                                                                    <  1:1440720/65‑1 (MQ=255)

                                                                                                                            ccATGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTACAGAACGCCAACGACTGTTGCTGCGACGGCGCATGTTCCAGCACGCCAACTCTCTCTGAAAACGtctc      <  1:711905/139‑1 (MQ=255)

                                                                                                                              aTGTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTACAGAACGCCAACGACTGTTGCTGCGACGGCGCATGTTCCAGCACGCCAACTCTCTCTGAAAACGTCTCCg    <  2:859873/139‑1 (MQ=255)

                                                                                                                                gTCTACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTACAGAACGCCAACGACTGTTGCTGCGACGGCGCATGTTCCAGCACGCCAACTCTCTCTGAAAACGTCTCCGGc  >  2:743533/1‑139 (MQ=255)

CGGCCTGCTACTTTGCCGGTCACTTCCTGATCGTCCGCTCGCTGTATCTCTGATAAAACTTGACTCTGGAGTCGACTCCAGAGTGTATCCTTCGGTTAATGAGAAAAAACTTAACCGGAGGATGCCATGTCGACTCCTGACAATCACGGCAAGAAAGCCCCTCAATTTGCTGCGTTCAAACCGCTAACCACGGTACAGAACGCCAACGACTGTTGCTGCGACGGCGCATGTTCCAGCACGCCAACTCTCTCTGAAAACGTCTCCGGC  >  NC_000913/3606325‑3606591

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A