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
A17 F48 I1 R1	90	35.3	1199032	98.5%	1181046	139.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,273,990	C→A	intergenic (‑119/‑135)	uvrA ← / → ssb	excision nuclease subunit A/ssDNA‑binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,273,990	0	C	A	100.0%	91.1 / NA	27	intergenic (‑119/‑135)	uvrA/ssb	excision nuclease subunit A/ssDNA‑binding protein
Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (18/9); total (18/9)

ACTTCGATCTTATCCATTCACCTTTCCCGGATTAAACGCTTTTTTGCCCGGTGGCATGGTGCTACCGGCGATCACAAACGGTTAATTATGACACAAATTGACCTGAATGAATATACAGTATTGGAATGCATTACCCGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGATTTTTTTCAGGAGAC  >  NC_000913/4273855‑4274118

aCTTCGATCTTATCCATTCACCTTTCCCGGATTAAACGCTTTTTTGCCCGGTGGCATGGTGCTACCGGCGATCACAAACGGTTAATTATGACACAAATTGACCTGAATGAATATACAGTATTGGAATGCATTACCAGGAg                                                                                                                              <  2:306546/140‑1 (MQ=255)

  ttCGATCTTATCCATTCCCCTTTCCCGGATTAAACGCTTTTTTGCCCGGTGGCATGGTGCTACCGGCGATCACAAACGGTTAATTATGACACAAATTGACCTGAATGAATATACAGTATTGGAATGCATTACCAGGAgtg                                                                                                                            <  1:215663/140‑1 (MQ=255)

           aTCCATTCACCTTTCCCGGATTAAACGCTTTTTTGCCCGGTGGCATGGTGCTACCGGCGATCACAAACGGTTAATTATGACACAAATTGACCTGAATGAATATACAGTATTGGAATGCATTACCAGGAGTGTTGTGTAAc                                                                                                                   >  2:177243/1‑140 (MQ=255)

                 tCACCTTTCCCGGATTAAACGCTTTTTTGCCCGGTGGCATGGTGCTACCGGCGATCACAAACGGTTAATTATGACACAAATTGACCTGAATGAATATACAGTATTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTc                                                                                                             >  2:456551/1‑140 (MQ=255)

                     cTTTCCCGGATTAAACGCTTTTTTGCCCGGTGGCATGGTGCTACCGGCGATCACAAACGGTTAATTATGACACAAATTGACCTGAATGAATATACAGTATTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGc                                                                                                         >  1:224268/1‑140 (MQ=255)

                     cTTTCCCGGATTAAACGCTTTTTTGCCCGGTGGCATGGTGCTACCGGCGATCACAAACGGTTAATTATGACACAAATTGACCTGAATGAATATACAGTATTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGc                                                                                                         >  1:43898/1‑140 (MQ=255)

                      tttCCCGGATTAAACGCTTTTTTGCCCGGTGGCATGGTGCTACCGGCGATCACAAACGGTTAATTATGACACAAATTGACCTGAATGAATATACAGTATTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGcc                                                                                                        <  2:536899/140‑1 (MQ=255)

                               ttAAACGCTTTTTTGCCCGGTGGCATGGTGCTACCGGCGATCACAAACGGTTAATTATGACACAAATTGACCTGAATGAATATACAGTATTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGgtttgtt                                                                                               <  2:307169/140‑1 (MQ=255)

                                         ttttGCCCGGTGGCATGGTGCTACCGGCGATCACAAACGGTTAATTATGACACAAATTGACCTGAATGAATATACAGTATTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAAcc                                                                                     <  2:506491/140‑1 (MQ=255)

                                          tttGCCCGGTGGCATGGTGCTACCGGCGATCACAAACGGTTAATTATGACACAAATTGACCTGAATGAATATACAGTATTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCg                                                                                    >  2:27042/1‑140 (MQ=255)

                                              accGGTGGCATGGTGCTACCGGCGATCACAAACGGTTAATTATGACACAAATTGACCTGAATGAATATAAAGTATTGGCATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGt                                                                                <  2:148959/139‑1 (MQ=255)

                                                 agTGGCATGGTGCTACCGGCGATCACAAACGGTTAATTATGACACAAATTGACCTGAATGAATATACAGTATTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTcac                                                                             <  2:480156/139‑1 (MQ=255)

                                                              tACCGGCGATCACAAACGGTTAATTATGACACAAATTGACCTGAATGAATATACAGTATTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAg                                                                <  1:177243/140‑1 (MQ=255)

                                                                    cGATCACAAACGGTTAATTATGACACAAATTGACCTGAATGAATATACAGTATTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTAt                                                          >  2:83519/1‑140 (MQ=255)

                                                                                 ttAATTATGACACAAATTGACCTGAATGAATATACAGTATTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGGACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACa                                             >  1:530822/1‑140 (MQ=255)

                                                                                         gACACAAATTGACCTGAATGAATATACAGTATTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATcgcgcg                                     >  1:65102/1‑140 (MQ=255)

                                                                                         gACACAAATTGACCTGAATGAATATACAGTATTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATcgcgcg                                     >  1:126635/1‑140 (MQ=255)

                                                                                           cacaAATTGACCTGAATGAATATACAGTATTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGtt                                   >  1:546039/1‑140 (MQ=255)

                                                                                                              atatACAGTATTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGAt                >  1:31781/1‑140 (MQ=255)

                                                                                                                   cAGTATTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGAtttttt           >  1:487741/1‑140 (MQ=255)

                                                                                                                   cAGTATTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGAtttttt           >  2:316835/1‑140 (MQ=255)

                                                                                                                      tATTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGATTTTTTTCa        >  2:266874/1‑140 (MQ=255)

                                                                                                                       aTTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGATTTTTTTCAg       >  1:594074/1‑140 (MQ=255)

                                                                                                                       aTTGGAATGCATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGATTTTTTTCAg       >  1:426434/1‑140 (MQ=255)

                                                                                                                            aaTGCATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGATTTTTTTCAGGAGac  >  2:334006/1‑140 (MQ=255)

                                                                                                                                cATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGATTTTTTTCAgg      <  2:235717/132‑1 (MQ=255)

                                                                                                                                cATTACCAGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGATTTTTTTCAgg      >  1:235717/1‑132 (MQ=255)

ACTTCGATCTTATCCATTCACCTTTCCCGGATTAAACGCTTTTTTGCCCGGTGGCATGGTGCTACCGGCGATCACAAACGGTTAATTATGACACAAATTGACCTGAATGAATATACAGTATTGGAATGCATTACCCGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGATTTTTTTCAGGAGAC  >  NC_000913/4273855‑4274118

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A