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
A28 F60 I1 R1	17	39.6	1345070	98.9%	1330274	138.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,012,996	G→T	intergenic (‑180/‑57)	metR ← / → metE	DNA‑binding transcriptional dual regulator MetR/cobalamin‑independent homocysteine transmethylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,012,996	0	G	T	100.0%	158.3 / NA	45	intergenic (‑180/‑57)	metR/metE	DNA‑binding transcriptional dual regulator MetR/cobalamin‑independent homocysteine transmethylase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (22/23); total (22/23)

TAACCGCCAATTATGGATGTGTAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTGCCGCCTTCCCTAAATTCAAAATCCATAGGATTTACATATAATTAGAGGAAGAAAAAATGACAATATTGAATCACACCCTCGGTTTCCCTCGCGTTGGCCTGCGTCGCGAGCTGAAAAAAGCGCAAGAAAGTTA  >  NC_000913/4012866‑4013129

tAACCGCCAATTATGGATGTGTAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTcc                                                                                                                              >  1:318698/1‑140 (MQ=255)

 aaCCGCCAATTATGGATGTGTAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTccc                                                                                                                             >  2:104020/1‑140 (MQ=255)

  aCCGCCAATTATGGATGTGTAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCt                                                                                                                            >  1:73374/1‑140 (MQ=255)

   ccGCCAATTATGGATGTGTAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTa                                                                                                                           >  2:313524/1‑140 (MQ=255)

    cGCCAATTATGGATGTGTAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTaa                                                                                                                          >  1:476071/1‑140 (MQ=255)

     gCCAATTATGGATGTGTAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTaaa                                                                                                                         >  2:220679/1‑140 (MQ=255)

      ccAATTATGGATGTGTAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAAt                                                                                                                        >  2:571265/1‑140 (MQ=255)

           tATGGATGTGTAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCaaa                                                                                                                   <  2:367887/140‑1 (MQ=255)

                aTGTGTAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCa                                                                                                              <  2:318698/140‑1 (MQ=255)

                aTGTGTAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCa                                                                                                              <  1:672149/140‑1 (MQ=255)

                aTGTGTAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCa                                                                                                              <  1:571265/140‑1 (MQ=255)

                 tgtgTAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCAt                                                                                                             <  1:115970/140‑1 (MQ=255)

                 tgtgTAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCAt                                                                                                             <  2:634716/140‑1 (MQ=255)

                 tgtgTAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCAt                                                                                                             <  2:476071/140‑1 (MQ=255)

                 tgtgTAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCAt                                                                                                             >  2:115970/1‑140 (MQ=255)

                 tgtgTAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCAt                                                                                                             <  1:120182/140‑1 (MQ=255)

                   tgtAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATa                                                                                                            >  1:296754/1‑139 (MQ=255)

                   tgtAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATa                                                                                                            <  2:296754/139‑1 (MQ=255)

                    gtAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAgg                                                                                                          >  1:657215/1‑140 (MQ=255)

                     tAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGa                                                                                                         >  1:364509/1‑140 (MQ=255)

                       aaCATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCAt                                                                                                             <  1:238562/134‑1 (MQ=255)

                       aaCATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCAt                                                                                                             >  2:238562/1‑134 (MQ=255)

                       aaCATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGAtt                                                                                                       >  2:90754/1‑140 (MQ=255)

                       aaCATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGAtt                                                                                                       <  2:73374/140‑1 (MQ=255)

                       aaCATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGAtt                                                                                                       <  1:220679/140‑1 (MQ=255)

                       aaCATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGAtt                                                                                                       <  2:662091/140‑1 (MQ=255)

                               gACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCTTAAATTCAAAATCCATAGGATTTACAtata                                                                                               >  1:148039/1‑140 (MQ=255)

                                              tCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGATTTACATATAATTAGAGGAAGaaaa                                                                                >  2:623262/1‑140 (MQ=255)

                                              tCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGATTTACATATAATTAGAGGAAGaaaa                                                                                >  2:268136/1‑140 (MQ=255)

                                                   ttttAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGATTTACATATAATTAGAGGAAGAAAAAATGa                                                                           <  1:104020/140‑1 (MQ=255)

                                                   ttttAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGATTTACATATAATTAGAGGAAGAAAAAATGa                                                                           <  2:364509/140‑1 (MQ=255)

                                                     ttAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGATTTACATATAATTAGAGGAAGAAAAAATGACa                                                                         <  1:39486/140‑1 (MQ=255)

                                                                   cGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGATTTACATATAATTAGAGGAAGAAAAAATGACAATATTGAATCacac                                                           >  1:156499/1‑140 (MQ=255)

                                                                                      ccccGGTCACTTACCTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGATTTACATATAATTAGAGGAAGAAAAAATGACAATATTGAATCACACCCTCGGTTTCCCTCGCGtt                                        >  1:443223/1‑140 (MQ=255)

                                                                                       cccGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGATTTACATATAATTAGAGGAAGAAAAAATGACAATATTGAATCACACCCTCGGTTTCCCTCGCGTTg                                       <  2:148039/140‑1 (MQ=255)

                                                                                                         tAAGCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGATTTACATATAATTAGAGGAAGAAAAAATGACAATATTGAATCACACCCTCGGTTTCCCTCGCGTTGGCCTGCGTCGCGAGCTGa                     >  1:223153/1‑140 (MQ=255)

                                                                                                            gCTCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGATTTACATATAATTAGAGGAAGAAAAAATGACAATATTGAATCACACCCTCGGTTTCCCTCGCGTTGGCCTGCGTCGCGAGCTGaaaa                  <  1:313524/140‑1 (MQ=255)

                                                                                                              tCCCGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGATTTACATATAATTAGAGGAAGAAAAAATGACAATATTGAATCACACCCTCGGTTTCCCTCGCGTTGGCCTGCGTCGCGAGCTGaaaaaa                <  2:657215/140‑1 (MQ=255)

                                                                                                               cccGGGGATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGATTTACATATAATTAGAGGAAGAAAAAATGACAATATTGAATCACACCCTCGGTTTCCCTCGCGTTGGCCTGCGTCGCGAGCTGAAAAAAg               <  2:443223/140‑1 (MQ=255)

                                                                                                                  ggggATGAATAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGATTTACATATAATTAGAGGAAGAAAAAATGACAATATTGAATCACACCCTCGGTTTCCCTCGCGTTGGCCTGCGTCGCGAGCTGAAAAAAgcgc            >  2:374843/1‑140 (MQ=255)

                                                                                                                      aTGAATAAACTTTCCGCCTTCCCTAAATTGAAAATCCATAGGATTTACATATAATTAGAGGAAGAAAAAATGACAATATTGAATCACACCCTCGGTTTCCCTCGCGTTGGCCTGCGTCGCGAGCTGAAAAAAGCGCAAGa        <  1:464674/140‑1 (MQ=255)

                                                                                                                          aTAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGATTTACATATAATTAGAGGAAGAAAAAATGACAATATTGAATCACACCCTCGGTTTCCCTCGCGTTGGCCTGCGTCGCGAGCTGAAAAAAGCGCAAGAAAGt    >  2:368298/1‑140 (MQ=255)

                                                                                                                          aTAAACTTTCCGCCTTCCCTAAATTCAAAATCCATAGGATTTACATATAATTAGAGGAAGAAAAAATGACAATATTGAATCACACCCTCGGTTTCCCTCGCGTTGGCCTGCGTCGCGAGCTGAAAAAAGCGCAAGAAAGt    >  2:179766/1‑140 (MQ=255)

                                                                                                                            aaaCTTTCCGCCTTCCCTAAATTCAAAATCCATAGGATTTACATATAATTAGAGGAAGAAAAAATGACAATATTGAATCACACCCTCGGTTTCCCTCGCGTTGGCCTGCGTCGCGAGCTGAAAAAAGCGCAAGAAAGTTa  <  2:156499/140‑1 (MQ=255)

                                                                                                                            aaaCTTTCCGCCTTCCCTAAATTCAAAATCCATAGGATTTACATATAATTAGAGGAAGAAAAAATGACAATATTGAATCACACCCTCGGTTTCCCTCGCGTTGGCCTGCGTCGCGAGCTGAAAAAAGCGCAAGAAAGTTa  <  1:623262/140‑1 (MQ=255)

TAACCGCCAATTATGGATGTGTAAACATCTGGACGGCTAAAATCCTTCGTCTTTTAAATTTATGGTGCGTTGGCTGCGTTTCTCCACCCCGGTCACTTACTTCAGTAAGCTCCCGGGGATGAATAAACTTGCCGCCTTCCCTAAATTCAAAATCCATAGGATTTACATATAATTAGAGGAAGAAAAAATGACAATATTGAATCACACCCTCGGTTTCCCTCGCGTTGGCCTGCGTCGCGAGCTGAAAAAAGCGCAAGAAAGTTA  >  NC_000913/4012866‑4013129

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A