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 F50 I2 R1	193	39.9	1341687	91.8%	1231668	149.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,949,005	T→C	Q322R (CAG→CGG)	yifB ←	magnesium chelatase family protein and putative transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,949,005	0	T	C	100.0%	104.7 / NA	30	Q322R (CAG→CGG)	yifB	magnesium chelatase family protein and putative transcriptional regulator
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (14/16); total (14/16)

GCCGGTTGAGATAACGTAATGTCTGTTCTGGCGTGCAGCGGTTATGGTTTCCCTGATAATGTCCGGTAGGGCTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCTGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGCTCATCAAGAAAAAGCACGCCGTTATGCGCCAGCGAAATTTCACCGGGCCCTGGAATTGCGCCACCGCCTACCATCGCAGTT  >  NC_000913/3948859‑3949145

gCCGGTTGAGATAACGTAATGTCTGTTCTGGCGTGCAGCGGTTATGGTTTCCCTGATAATGTCCGGTAGGGCTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGccc                                                                                                                                          <  2:645538/151‑1 (MQ=255)

            aaCGTAATGTCTGTTCTGGCGTGCAGCGGTTATGGTTTCCCTGATAATGTCCGGTAGGGCTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCgg                                                                                                                              >  1:546390/1‑151 (MQ=255)

             aCGTAATGTCTGTTCTGGCGTGCAGCGGTTATGGTTTCCCTGATAATGTCCGGTAGGGCTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGc                                                                                                                             >  1:492607/1‑151 (MQ=255)

              cGTAATGTCTGTTCTGGCGTGCAGCGGTTATGGTTTCCCTGATAATGTCCGGTAGGGCTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGct                                                                                                                            >  2:129678/1‑151 (MQ=255)

                      cTGTTCTGGCGTGCAGCGGTTATGGTTTCCCTGATAATGTCCGGTAGGGCTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCa                                                                                                                      >  2:372708/1‑149 (MQ=255)

                             ggCGTGCAGCGGTTATGGTTTCCCTGATAATGTCCGGTAGGGCTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATc                                                                                                               <  1:129674/149‑1 (MQ=255)

                             ggCGTGCAGCGGTTATGGTTTCCCTGATAATGTCCGGTAGGGCTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCa                                                                                                             <  1:109862/151‑1 (MQ=255)

                               cGTGCAGCGGTTATGGTTTCCCTGATAATGTCCGGTAGGGCTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCACCCAgt                                                                                                           <  2:470886/151‑1 (MQ=255)

                                      cGGTTATGGTTTCCCTGATAATGTCCGGTAGGGCTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGcc                                                                                                    <  1:103520/151‑1 (MQ=255)

                                        gTTATGGTTTCCCTGATAATGTCCGGTAGGGCTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGt                                                                                                  >  1:427948/1‑151 (MQ=255)

                                              gTTTCCCTGATAATGTCCGGTAGGGTTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAAt                                                                                            <  2:385488/151‑1 (MQ=255)

                                                      gATAATGTCCGGTAGGGCTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGt                                                                                      <  2:234681/149‑1 (MQ=255)

                                                       aTAATGTCCGGTAGGGCTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGc                                                                                   >  2:75406/1‑151 (MQ=255)

                                                          aTGTCCGGTAGGGCTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGCtca                                                                                <  2:48268/151‑1 (MQ=255)

                                                             tCCGGTAGGGCTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGCtcatc                                                                              >  1:136121/1‑150 (MQ=255)

                                                                 gTAGGGCTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGCTCATCAAGaa                                                                         <  1:383575/151‑1 (MQ=255)

                                                                     ggCTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGCTCATCAAGAAAAAg                                                                     <  2:580962/151‑1 (MQ=255)

                                                                      gCTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGCTCATCAAGAAAAAGc                                                                    >  1:82565/1‑151 (MQ=255)

                                                                              tCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGCTCATCAAGAAAAAGCACGCCGt                                                             <  2:80433/150‑1 (MQ=255)

                                                                                         acaaGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGCTCATCAAGAAAAAGCACGCCGTTATGCGCCAGCg                                                 >  2:584993/1‑151 (MQ=255)

                                                                                           aaGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGCTCATCAAGAAAAAGCACGCCGTTATGCGCCAGCGa                                                <  1:122252/150‑1 (MQ=255)

                                                                                             gCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGCTCATCAAGAAAAAGCACGCCGTTATGCGCCAGCGAAAt                                             <  2:73989/151‑1 (MQ=255)

                                                                                                    aCGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGCTCATCAAGAAAAAGCACGCCGTTATGCGCCAGCGAAATTTCACCg                                      >  1:98531/1‑151 (MQ=255)

                                                                                                     cGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGCTCATCAAGAAAAAGCACGCCGTTATGCGCCAGCGAAATTTCACCgg                                     >  2:220096/1‑151 (MQ=255)

                                                                                                     cGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGCTCATCAAGAAAAAGCACGCCGTTATGCGCCAGCGAAATTTCACCgg                                     <  2:641133/151‑1 (MQ=255)

                                                                                                                ggTTATTTTTGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGCTCATCAAGAAAAAGCACGCCGTTATGCGCCAGCGAAATTTCACCGGGCCCTGGAAtt                          >  1:85447/1‑151 (MQ=255)

                                                                                                                      ttttGCTCGTGTGCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGCTCATCAAGAAAAAGCACGCCGTTATGCGCCAGCGAAATTTCACCGGGCCCTGGAATTGCGcc                     >  2:509487/1‑150 (MQ=255)

                                                                                                                               tgtgCGTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGCTCATCAAGAAAAAGCACGCCGTTATGCGCCAGCGAAATTTCACCGGGCCCTGGAATTGCGCCACCGCCt              <  1:509122/148‑1 (MQ=255)

                                                                                                                                    gTGAAAGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGCTCATCAAGAAAAAGCACGCCGTTATGCGCCAGCGAAATTTCACCGGGCCCTGGAATTGCGCCACCGCCTACCATCGc      <  2:14209/151‑1 (MQ=255)

                                                                                                                                        aaGATGGATCCGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGCTCATCAAGAAAAAGCACGCCGTTATGCGCCAGCGAAATTTCACCGGGCCCTGGAATTGCGCCACCGCCTACCATCGCAGtt  >  2:623852/1‑151 (MQ=255)

GCCGGTTGAGATAACGTAATGTCTGTTCTGGCGTGCAGCGGTTATGGTTTCCCTGATAATGTCCGGTAGGGCTGGGATTCATCGCCGCAACAAGCTGGAAACGGGCTGGATAGGTTATTTTTGCTCGTGTGCGTGAAAGATGGATCTGCCCGGATTCAATCGGCTCTCGCAAGGCATCCAGTGTACGCCGTTCAAATTCAGGTAGCTCATCAAGAAAAAGCACGCCGTTATGCGCCAGCGAAATTTCACCGGGCCCTGGAATTGCGCCACCGCCTACCATCGCAGTT  >  NC_000913/3948859‑3949145

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 20 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A