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 F28 I1 R1	139	53.6	1844736	98.1%	1809686	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,463,955	A→G	A139A (GCA→GCG)	paaX →	DNA‑binding transcriptional repressor PaaX

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,463,955	0	A	G	100.0%	126.8 / NA	37	A139A (GCA→GCG)	paaX	DNA‑binding transcriptional repressor PaaX
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (16/21); total (16/21)

GTAAAATTTATCGCGCAGAGCAACCTGCATGGGATGGTAAATGGCTCCTGTTGCTCTCGGAAGGTTTAGATAAATCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCACCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGATTTGTTTTGAAGCGCAAATACCACTGGCGCTTTCTCGCGCAGCACTGCGTGCCA  >  NC_000913/1463825‑1464091

gTAAAATTTATCGCGCAGAGCAACCTGCATGGGATGGTAAATGGCTCCTGTTGCTCTCGGAAGGTTTAGATAAATCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTg                                                                                                                                 <  2:85785/140‑1 (MQ=255)

gTAAAATTTATCGCGCAGAGCAACCTGCATGGGATGGTAAATGGCTCCTGTTGCTCTCGGAAGGTTTAGATAAATCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTg                                                                                                                                 <  2:146769/140‑1 (MQ=255)

   aaaTTTATCGCGCAGAGCAACCTGCATGGGATGGTAAATGGCTCCTGTTGCTCTCGGAAGGTTTAGATAAATCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATg                                                                                                                              >  1:430575/1‑140 (MQ=255)

           cgcgCAGAGCAACCTGCATGGGATGGTAAATGGCTCCTGTTGCTCTCGGAAGGTTTAGATAAATCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGcc                                                                                                                      <  1:149860/140‑1 (MQ=255)

                     aaCCTGCATGGGATGGTAAATGGCTCCTGTTGCTCTCGGAAGGTTTAGATAAATCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCaaaaa                                                                                                            <  1:317298/140‑1 (MQ=255)

                       ccTGCATGGGATGGTAAATGGCTCCTGTTGCTCTCGGAAGGTTTAGATAAATCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACt                                                                                                          <  2:86951/140‑1 (MQ=255)

                            aTGGGATGGTAAATGGCTCCTGTTGCTCTCGGAAGGTTTAGATAAATCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCg                                                                                                     >  2:878244/1‑140 (MQ=255)

                                 aTGGTAAATGGCTCCTGTTGCTCTCGGAAGGTTTAGATAAATCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTa                                                                                                >  1:372333/1‑140 (MQ=255)

                                     tAAATGGCTCCTGTTGCTCTCGGAAGGTTTAGATAAATCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGa                                                                                            >  2:437403/1‑140 (MQ=255)

                                         tGGCTCCTGTTGCTCTCGGAAGGTTTAGATAAATCAACGCTGGCTGATGTCAAAAAGCATTTGATCTGGCAAGTTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAGCTGGCCGATGTACAGACACt                                                                                        <  1:229455/140‑1 (MQ=255)

                                          ggCTCCTGTTGCTCTCGGAAGGTTTAGATAAATCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACtt                                                                                       <  1:5960/140‑1 (MQ=255)

                                               cTGTTGCTCTCGGAAGGTTTAGATAAATCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCa                                                                                  >  1:127767/1‑140 (MQ=255)

                                                 gTTGCTCTCGGAAGGTTTAGATAAATCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATg                                                                                >  2:250213/1‑140 (MQ=255)

                                                  ttGCTCTCGGAAGGTTTAGATAAATCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGa                                                                               >  1:254672/1‑140 (MQ=255)

                                                     ctctCGGAAGGTTTAGATAAATCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGc                                                                            >  1:905816/1‑140 (MQ=255)

                                                           gAAGGTTTAGATAAATCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGgtgt                                                                      <  1:334112/140‑1 (MQ=255)

                                                           gAAGGTTTAGATAAATCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGgtgt                                                                      <  1:447318/140‑1 (MQ=255)

                                                                  tAGATAAATCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGAt                                                               >  1:426105/1‑140 (MQ=255)

                                                                          tCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGAt                                                       >  1:288423/1‑140 (MQ=255)

                                                                          tCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGAt                                                       <  2:372333/140‑1 (MQ=255)

                                                                                   gctgATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGATTTGTTTTGa                                              >  2:612850/1‑140 (MQ=255)

                                                                                    ctgATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGATTTGTTTTGaa                                             <  1:250213/140‑1 (MQ=255)

                                                                                     tgATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGATTTGTTTTGAAg                                            <  2:288423/140‑1 (MQ=255)

                                                                                       aTGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGATTTGTTTTGAAgcg                                          >  2:868612/1‑140 (MQ=255)

                                                                                         gTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGATTTGTTTTGAAGCGCa                                        <  1:330379/140‑1 (MQ=255)

                                                                                                 gCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGATTTGTTTTGAAGCGCAAATACCAc                                <  2:905816/140‑1 (MQ=255)

                                                                                                    gTTGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGATTTGTTTTGAAGCGCAAATACCACTgg                             >  2:325288/1‑140 (MQ=255)

                                                                                                      tGATCTGGCAAGGTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGATTTGTTTTGAAGCGCAAATACCACTGgcg                           <  2:127767/140‑1 (MQ=255)

                                                                                                                  gTTTTGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGATTTGTTTTGAAGCGCAAATACCACTGGCGCTTTCTCgcgcg               >  1:146328/1‑139 (MQ=255)

                                                                                                                   ttttGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGATTTGTTTTGAAGCGCAAATACCACTGGCGCTTTCTCGCgcag              <  1:437403/140‑1 (MQ=255)

                                                                                                                   ttttGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGATTTGTTTTGAAGCGCAAATACCACTGGCGCTTTCTCGCgcag              <  1:325288/140‑1 (MQ=255)

                                                                                                                    tttGGCGCACTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGATTTGTTTTGAAGCGCAAATACCACTGGCGCTTTCTCGCgcagc             >  1:150683/1‑140 (MQ=255)

                                                                                                                             cTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGATTTGTTTTGAAGCGCAAATACCACTGGCGCTTTCTCGCGCAGCACTGCGTGc    <  2:125649/140‑1 (MQ=255)

                                                                                                                             cTGGCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGATTTGTTTTGAAGCGCAAATACCACTGGCGCTTTCTCGCGCAGCACTGCGTGc    >  1:125649/1‑140 (MQ=255)

                                                                                                                               ggCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGATTTGTTTTGAAGCGCAAATACCACTGGCGCTTTCTCGCGCAGCACTGCGTGCCa  <  2:281297/140‑1 (MQ=255)

                                                                                                                               ggCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGATTTGTTTTGAAGCGCAAATACCACTGGCGCTTTCTCGCGCAGCACTGCGTGCCa  <  1:83608/140‑1 (MQ=255)

                                                                                                                               ggCGCCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGATTTGTTTTGAAGCGCAAATACCACTGGCGCTTTCTCGCGCAGCACTGCGTGCCa  <  1:612850/140‑1 (MQ=255)

GTAAAATTTATCGCGCAGAGCAACCTGCATGGGATGGTAAATGGCTCCTGTTGCTCTCGGAAGGTTTAGATAAATCAACGCTGGCTGATGTCAAAAAGCAGTTGATCTGGCAAGGTTTTGGCGCACTGGCACCCAGCCTGATGGCATCGCCGTCGCAAAAACTGGCCGATGTACAGACACTTTTGCATGAAGCGGGTGTGGCGGATAACGTGATTTGTTTTGAAGCGCAAATACCACTGGCGCTTTCTCGCGCAGCACTGCGTGCCA  >  NC_000913/1463825‑1464091

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A