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
A12 F28 I1 R1	123	51.0	1731148	99.3%	1719029	138.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,101,115	T→C	D170G (GAC→GGC)	yggN ←	putative EcfF

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,101,115	0	T	C	100.0%	105.7 / NA	30	D170G (GAC→GGC)	yggN	putative EcfF
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (11/19); total (11/19)

ACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAG‑CCCCCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGTCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAACCTGATCAATGGCTTTATAGTGAAACGTCAGGCCATCGCTGCGCGTTTCAATAATGCGGTTCATCTGCTCTTTCAGCTGC  >  NC_000913/3100978‑3101249

aCTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAG‑CCCCCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGccc                                                                                                                                      >  2:24970/1‑140 (MQ=255)

    ctgGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAG‑CCCCCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTa                                                                                                                                  <  1:182817/140‑1 (MQ=255)

    ctgGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAG‑CCCCCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTa                                                                                                                                  >  1:300419/1‑140 (MQ=255)

          aTCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAG‑CCCCCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTc                                                                                                                            <  1:24970/140‑1 (MQ=255)

            cTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAG‑CCCCCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCa                                                                                                                          <  2:58097/140‑1 (MQ=255)

                   cTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCCCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCAtt                                                                                                                    <  2:143850/140‑1 (MQ=255)

                    tGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAG‑CCCCCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGc                                                                                                                  <  2:702012/140‑1 (MQ=255)

                     gCTTTTTCCACTAGGTTTGGATTGAGGATTGCAG‑CCCCCCCAGGCTTCCCAACACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCCTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGcc                                                                                                                 <  2:631375/140‑1 (MQ=255)

                              aCTCGGTTTGGATTGAGGATTGCAG‑CCCCCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACt                                                                                                        <  2:484661/140‑1 (MQ=255)

                                 cGGTTTGGATTGAGGATTGCAG‑CCCCCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAAt                                                                                                     >  1:228447/1‑140 (MQ=255)

                                             aGGATTGCAG‑CCCCCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCg                                                                                         >  2:573430/1‑140 (MQ=255)

                                              ggATTGCAG‑CCCCCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCgg                                                                                        >  2:798314/1‑140 (MQ=255)

                                                aTTGCAG‑CCCCCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGgcg                                                                                      <  1:783099/140‑1 (MQ=255)

                                                  tGCAG‑CCCCCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGcgcg                                                                                    <  1:798314/140‑1 (MQ=255)

                                                      g‑CCCCCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAAcc                                                                                <  1:695406/140‑1 (MQ=255)

                                                              cAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAACCTGATCaa                                                                         <  2:378971/140‑1 (MQ=255)

                                                                   ttCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAACCTGATCAATGGCt                                                                    <  2:228447/140‑1 (MQ=255)

                                                                     cccAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAACCTGATCAATGGCttt                                                                  >  1:346730/1‑140 (MQ=255)

                                                                            caTTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAACCTGATCAATGGCTTTATAGTGa                                                           <  2:300419/140‑1 (MQ=255)

                                                                               tCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAACCTGATCAATGGCTTTATAGTGAAAc                                                        >  2:829676/1‑140 (MQ=255)

                                                                                        ggTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAACCTGATCAATGGCTTTATAGTGa                                                           <  2:521112/128‑1 (MQ=255)

                                                                                        ggTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAACCTGATCAATGGCTTTATAGTGa                                                           >  1:521112/1‑128 (MQ=255)

                                                                                         gTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAACCTGATCAATGGCTTTATAGTGAAACGt                                                      >  1:598290/1‑132 (MQ=255)

                                                                                         gTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAACCTGATCAATGGCTTTATAGTGAAACGt                                                      <  2:598290/132‑1 (MQ=255)

                                                                                             ccgccgCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAACCTGATCAATGGCTTTATAGTGAAACGTCAGGCCATCGCt                                          >  1:681437/1‑140 (MQ=255)

                                                                                                ccgcTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAACCTGATCAATGGCTTTATAGTGAAACGTCAGGCCATCGCTgcg                                       <  2:681437/140‑1 (MQ=255)

                                                                                                ccgcTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAACCTGATCAATGGCTTTATAGTGAAACGTCAGGCCATCGCTgcg                                       <  1:829676/140‑1 (MQ=255)

                                                                                                  gcTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAACCTGATCAATGGCTTTATAGTGAAACGTCAGGCCATCGCTGcgcg                                     >  2:604007/1‑140 (MQ=255)

                                                                                                       tCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAACCTGATCAATGGCTTTATAGTGAAACGTCAGGCCATCGCTGCGCGTTTCa                                <  1:686144/140‑1 (MQ=255)

                                                                                                              cGCTTTCGCGCCCATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAACCTGATCAATGGCTTTATAGTGAAACGTCAGGCCATCGCTGCGCGTTTCAATAATGc                         >  2:421238/1‑140 (MQ=255)

                                                                                                                        cccATTTCATTAATGCTGCCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAACCTGATCAATGGCTTTATAGTGAAACGTCAGGCCATCGCTGCGCGTTTCAATAATGCGGTTCATCTg               <  1:421238/140‑1 (MQ=255)

                                                                                                                                     tgctgcCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAACCTGATCAATGGCTTTATAGTGAAACGTCAGGCCATCGCTGCGCGTTTCAATAATGCGGTTCATCTGCTCTTTCAGCTgc  >  2:765222/1‑140 (MQ=255)

ACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAG‑CCCCCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGTCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCGCGAACCTGATCAATGGCTTTATAGTGAAACGTCAGGCCATCGCTGCGCGTTTCAATAATGCGGTTCATCTGCTCTTTCAGCTGC  >  NC_000913/3100978‑3101249

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