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
A5 F109 I1 R1	27	23.1	511165	92.8%	474361	140.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	396,540	G→A	A208T (GCA→ACA)	USA300HOU_0364 →	possible lipoprotein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	396,540	0	G	A	100.0%	79.8 / NA	30	A208T (GCA→ACA)	USA300HOU_0364	possible lipoprotein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (17/13); total (17/13)

ATACCAAAATTAATGTTACAAGGTTCTGTTGACCTATTAAATGAAGTTGCAACTTCTAAAATCACAGGTGAAGAAGAAATTTATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCGCACAAAAAATTTATGACTTATTTAAACCTATTTTAGAGAAAAAAGATAAAAAATTAAGTGATGATATCCAAATGAACTTCGATAAAGTGAATCAATTATTGGATAAATATAAAGATAACAACGGCGGTTATGAGTC  >  CP000730/396414‑396676

aTACCAAAATTAATGTTACAAGGTTCTGTTGACCTATTAAATGAAGTTGCAACTTCTAAAATCACAGGTGAAGAAGAAATTTATTCACATACAGAGTTATATGATTTTAAAGCGAAAGTTGAAGGCACACCAAAAATTTAt                                                                                                                            >  2:432057/1‑141 (MQ=255)

   ccAAAATTAATGTTACAAGGTTCTGTTGACCTATTAAATGAAGTTGCAACTTCTAAAATCACAGGTGAAGAAGAAATTTATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAAAAATTTATGAc                                                                                                                         <  2:14240/141‑1 (MQ=255)

    cAAAATTAATGTTACAAGGTTCTGTTGACCTATTAAATGAAGTTGCAACTTCTAACATCACAGGGGAAGAAGAAATTTATTCACATACAGATTTATATGATTTTAAACACACCGTTGAAGGCACACAAAACATTTATGCCt                                                                                                                        >  2:210388/1‑141 (MQ=255)

    aaaaaTTAATGTTACAAGGTTCTGTTGACCTATTAAATGAAGTTGCAACTTCTAAAATCACAGGTGAAGAAGAAATTTATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAAAAAAACAAAAAATTTATGACt                                                                                                                        <  2:256482/140‑1 (MQ=255)

      aaaTTAATGTTACAAGGTTCTGTTGACCTATTAAATGAAGTTGCAACTTCTAAAATCAAAGGTGAAGAAGAAATTTATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAAAAAATTATGACTTa                                                                                                                      >  2:487070/1‑141 (MQ=255)

       aaTTAATGTTACAAGGTTCTGTTGACCTATTAAATGAAGTTGCAACTTCTAAAATCACAGGTGAAGAAGAAATTTATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAAAAATTTATGACTTAt                                                                                                                     <  2:314138/141‑1 (MQ=255)

            aTGTTACAAGGTTCTGTTGACCTATTAAATGAAGTTGCAACTTCTAAAATCACAGGTGAAGAAGAAATTTATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAAAAATTTATGACTTATTTaaa                                                                                                                >  2:37151/1‑141 (MQ=255)

                 aCAAGGTTCTGTTGACCTATTAAATGAAGTTGCAACTTCTAAAATCACAGGTGAAGAAGAAATTTATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAAAAATTTATGACTTATTTAAACCTAt                                                                                                           >  2:262083/1‑141 (MQ=255)

                     ggTTCTGTTGACCTATTAAATGAAGTTGCAACTTCTAAAATCACAGGTGAAGAAGAAATTTATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAAAAATTTATGACTTATATAAACCTATTTTa                                                                                                       >  2:72597/1‑141 (MQ=255)

                     ggTTCAGTTGACCTATTAAATGAAGTAGCAACTTCTAAAATCACAGGTGAAGAAAAAAATAAAAAAAATACAGATATATACGATTTTAAAGCGAACGTTAAAGGCAGACAAAAAATTTATGACTTATTTaaaaaaaaaaaa                                                                                                       <  2:472804/141‑10 (MQ=255)

                        tCTGTTGACCTATTAAATGAAGTTGCAACGTCTAAAACCACAGGTGAAGAAGAAATTGATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAACCGTGCATGACTTATTTTTACCTATTTTagag                                                                                                    <  2:456197/141‑1 (MQ=255)

                              gACCTATTAAATGAAGTTGCAACTTCTAAAATCACAGGTGAAGAAGAAATTTATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAAAAATTTATGACTTATTTAAACCTATTTTAGAGaaaaaa                                                                                              >  2:406480/1‑141 (MQ=255)

                              gACCTATTAAATGAAGTTGCAACTTCTAAAATCACAGGTGAAGAAGAAATTTATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAAAAATTTATGAATTATTTAAACCTATTTTAGAGaaaaaa                                                                                              >  2:451287/1‑141 (MQ=255)

                                ccTATTAAATGAAGTTGCAACTTCTAAAATCACAGGGGAAGAAGAAATTTATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAAAAATTTATGACTTATTTAAACCTATTTTAGAGAAAAAAGa                                                                                            <  2:178859/141‑1 (MQ=255)

                                        ttGAAGTTGCAACTGCTAACAGCACAGGTGAAAAAGAAAGTGATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAAAAATTTATGACTTATTTACACCTATTTTAGAGAAAAAAGATAAAAAAt                                                                                    <  2:48789/140‑1 (MQ=255)

                                           aaGTTGCAACTTCTAAAATCACAGGTGAAGAAGAAATTTATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAAAAATTTATGACTTATTTAAACCTATTTTAGAGAAAAAAGATAAAAAATTaa                                                                                 >  2:452531/1‑141 (MQ=255)

                                                   aCTTCTAAAATCACAGGTGAAGAAGAAATTTATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAAAAATTTATGACTTATTTAAACCTATTTTAGAGAAAAAAGATAAAAAATTAAGtgatgaa                                                                         >  2:484406/1‑140 (MQ=255)

                                                   aCTTCTAAAATCACAGGTGAAGAAGAAATTTATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAAAAATTTATGACTTATTTAAACCTATTTTAGAGAAAAAAGATAAAAAATTAAGTgatgat                                                                         >  2:198775/1‑141 (MQ=255)

                                                   aCTTCTAAAATCACAGGTGAAGAAGAAATTTATTCACATACAGATCTATATGATGTTAAAGCGAACGTTGAAGGCACACAAAAAATTTATGACTTATTTAAACCTATTTTAGAGAAAAAAGATAAAAAATTAAGTgatgat                                                                         >  2:478538/1‑141 (MQ=255)

                                                    cTTCTAAAATCACAGGTGAAGAAGAAATTTATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAAAAATTTATGACTTATTTAAACCTATTTTAGAGAAAAAAGATAAAAAAGTAAGTGATGata                                                                        >  2:63618/1‑141 (MQ=255)

                                                               acaGGTGAAGAAGAAATTTATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAAAAATTTATGACTTATTTAAACCTATTTTAGAGAAAAAAGATAAAAAATTAAGTGATGATATCCAAATGAAc                                                             <  2:10717/141‑1 (MQ=255)

                                                                   gTGAAGAAGAAATTTATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAAAAATTTATGACTTATTTAAACCTATTTTAGAGAAAAAAGATAAAAAATTAAGTGATGATATCCAAATGAACTTCg                                                         >  2:20248/1‑141 (MQ=255)

                                                                               tttATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAAAAATTTATGACTTATTTAAACCTATTTTAGAGAAAAAAGATAAAAAATTAAGTGATGATATCCAAATGAACTTCGATAAAGTGAATc                                             <  2:364905/141‑1 (MQ=255)

                                                                                         tACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAAAAATTTATGACTTATTTAAACCTATTTTAGAGAAAAAAGATAAAAAATTAAGTGATGATATCCAAATGAACTTCGATAAAGTGAATCAATTATTGGa                                   >  2:436782/1‑141 (MQ=255)

                                                                                             aaTTTATATGATTTTAAAGCGAACGTTGAAGGCACACAAAAAATTTATGACTTATTTAAACCTATTTTAGAGAAAAAAGATAAAAAATTAAGTGATGATATCCAAATGAACTTCGATAAAGTGAATCAATTATTGGATaaa                               <  2:238818/140‑1 (MQ=255)

                                                                                                        ttttAAAGCGAACGTTGAAAGCACAACAAAAAGTTATGACTTATTTAAACCTATTTTAGAGAAAAGAGATAAAAAATTAAGTGATGATATCCAAATGAACTTCGATAAAGTGACTCAATCATTGTAttgttattaattcaa                    <  2:475990/141‑15 (MQ=255)

                                                                                                         tttAAAGCGAACGTTGAAGGCACACCAAAAAATTACAACCTATTTAAACCTAAATTAGACAAAAAATATAAAAAATTAAGTGAAGATATCCAAATGAACTTCGATAAAGTGAATCAATTATTGGATAAATATAAAGATaac                   <  2:166190/141‑1 (MQ=255)

                                                                                                         tttAAAGCGAACGTTGAAGGCACACAAAAAATTTATGACTTATTTAAACCTATTTTAGAGAAAAAAGATAAAAAATTAAGTGATGATATCCAAATGAACTTCGATAAAGTGAATCAATTATTGGATAAATATAAAGATaac                   <  2:39135/141‑1 (MQ=255)

                                                                                                                cGAACGTTGAAGGCACACAAAAAATTTATGAATTATTTAAACCTATTATAGAGAGAAGAGATAACAACTTAAGTGATGATATCCAAATGAACTTCGATAAAGGGAATCAATTATTGGATAAATATAAAGATAACAacgacg            >  2:190190/1‑141 (MQ=255)

                                                                                                                          aGGCACACAAAAAATTTATGACTTATTTAAACCTATTTTAGAGAAAAAAGATAAAAAATTAAGTGATGATATCCAAATGAACTTCGATAAAGTGAATCAATTATTGGATAAATATAAAGATAACAACGGCGGTTATGAGTc  >  2:357335/1‑141 (MQ=255)

ATACCAAAATTAATGTTACAAGGTTCTGTTGACCTATTAAATGAAGTTGCAACTTCTAAAATCACAGGTGAAGAAGAAATTTATTCACATACAGATTTATATGATTTTAAAGCGAACGTTGAAGGCGCACAAAAAATTTATGACTTATTTAAACCTATTTTAGAGAAAAAAGATAAAAAATTAAGTGATGATATCCAAATGAACTTCGATAAAGTGAATCAATTATTGGATAAATATAAAGATAACAACGGCGGTTATGAGTC  >  CP000730/396414‑396676

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A