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
A0 F0 I1 R1	715	38.4	1606192	96.6%	1551581	120.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,154,109	G→A	270 (TAG→TAA)	pabC →	4‑amino‑4‑deoxychorismate lyase component of para‑aminobenzoate synthase multienzyme complex

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,154,109	0	G	A	100.0%	113.3 / NA	36	270 (TAG→TAA)	pabC	4‑amino‑4‑deoxychorismate lyase component of para‑aminobenzoate synthase multienzyme complex
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (17/19); total (17/19)

TCGTTGCAGGCAGATGAGATGGTTATTTGTAATGCGTTAATGCCAGTGATGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAGTCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTACTGGGTATCGCCGCTGGTGTGGGCGTCTGGAAGGTTCGCCATCTTGCCGACAGCAAATTGCTTATCAAAGAAGAGACGATATTT  >  NC_000913/1153975‑1154237

tCGTTGCAGGCAGATGAGATGGTTATTTGTAATGCGTTAATGCCAGTGATGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCAt                                                                                                                              >  1:677079/1‑139 (MQ=255)

    tGCAGGCAGATGAGATGGTTATTTGTAATGCGTTAATGCCAGTGATGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGaaa                                                                                                                          >  2:184388/1‑139 (MQ=255)

       aggcagATGAGATGGTTATTTGTAATGCGTTAATGCCAGTGATGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGaaaaaa                                                                                                                       <  2:418809/139‑1 (MQ=255)

                  atgGTTATTTGTAATGCGTTAATGCCAGTGATGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGAt                                                                                                            <  2:351668/139‑1 (MQ=255)

                    ggTTATTTGTAATGCGTTAATGCCAGTGATGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATaa                                                                                                          >  2:178617/1‑139 (MQ=255)

                    ggTTATTTGTAATGCGTTAATGCCAGTGATGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATaa                                                                                                          <  1:716889/139‑1 (MQ=255)

                     gTTATTTGTAATGCGTTAATGCCAGTGATGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAAt                                                                                                         <  1:55809/139‑1 (MQ=255)

                          ttGTAATGCGTTAATGCCAGTGATGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGt                                                                                                    <  2:783886/139‑1 (MQ=255)

                              aaTGCGTTAATGCCAGTGATGCGCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTAtt                                                                                                <  2:546132/139‑1 (MQ=255)

                               aTGCGTTAATGCCAGTGATGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTg                                                                                               >  2:419471/1‑139 (MQ=255)

                               aTGCGTTAATGCCAGTGATGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTg                                                                                               >  1:639727/1‑139 (MQ=255)

                               aTGCGTTAATGCCAGTGAGGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTGATTg                                                                                               >  2:526959/1‑139 (MQ=255)

                                tGCGTTAATGCCAGTGATGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGc                                                                                              >  1:787255/1‑139 (MQ=255)

                                  cGTTAATGCCAGTGATGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCtg                                                                                            >  1:381377/1‑139 (MQ=255)

                                   gTTAATGCCAGTGATGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCtgg                                                                                           <  2:381377/139‑1 (MQ=255)

                                        tGCCAGTGATGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTa                                                                                      <  2:421771/139‑1 (MQ=255)

                                            aGTGATGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCAt                                                                                                                              >  1:375021/1‑95 (MQ=255)

                                            aGTGATGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCAt                                                                                                                              <  2:375021/95‑1 (MQ=255)

                                                 tGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTACTGGGTATc                                                                             >  1:675161/1‑139 (MQ=255)

                                                             ccTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTACTGGGTATCGCCGCTGGtgtg                                                                 <  1:184388/139‑1 (MQ=255)

                                                             ccTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACCTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTACTGGGTATCGCCGCTGGtgtg                                                                 <  1:526959/139‑1 (MQ=255)

                                                                 tgGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTACTGGGTATCGCCGCTGGTGTGGGCg                                                             <  1:406196/139‑1 (MQ=255)

                                                                 tgGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTACTGGGTATCGCCGCTGGTGTGGGCg                                                             >  2:205523/1‑139 (MQ=255)

                                                                                                      tatTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTACTGGGTATCGCCGCTGGTGTGGGCGTCTGGAAGGTTCGCCATCTTGCCGACAGCAAATTGCt                        >  1:145763/1‑139 (MQ=255)

                                                                                                      tatTTAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTACTGGGTATCGCCGCTGGTGTGGGCGTCTGGAAGGTTCGCCATCTTGCCGACAGCAAATTGCt                        <  1:419471/139‑1 (MQ=255)

                                                                                                        tttAGCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTACTGGGTATCGCCGCTGGTGTGGGCGTCTGGAAGGTTCGCCATCTTGCCGACAGCAAATTGCTTa                      >  1:155168/1‑139 (MQ=255)

                                                                                                            gCCCCACTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTACTGGGTATCGCCGCTGGTGTGGGCGTCTGGAAGGTTCGCCATCTTGCCGACAGCAAATTGCTTATCaa                  <  1:621929/139‑1 (MQ=255)

                                                                                                                 aCTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTACTGGGTATCGCCGCTGGTGTGGGCGTCTGGaa                                                      >  2:260204/1‑98 (MQ=255)

                                                                                                                 aCTTTGTGAGCGCCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTACTGGGTATCGCCGCTGGTGTGGGCGTCTGGaa                                                      <  1:260204/98‑1 (MQ=255)

                                                                                                                           cgcCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTa                                                                                      >  1:744115/1‑56 (MQ=255)

                                                                                                                           cgcCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTa                                                                                      <  2:744115/56‑1 (MQ=255)

                                                                                                                           cgcCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTACTGGGTATCGCCGCTGGTGTGGGCGTCTGGAAGGTTCGCCATCTTGCCGACAGCAAATTGCTTATCaaa                 <  2:165392/125‑1 (MQ=255)

                                                                                                                           cgcCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTACTGGGTATCGCCGCTGGTGTGGGCGTCTGGAAGGTTCGCCATCTTGCCGACAGCAAATTGCTTATCaaa                 >  1:165392/1‑125 (MQ=255)

                                                                                                                            gcCCGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTACTGGGTATCGCCGCTGGTGTGGGCGTCTGGAAGGTTCGCCATCTTGCCGACAGCAAATTGCTTATCAAAGAAGAGACGATAttt  <  2:675161/139‑1 (MQ=255)

                                                                                                                             cccGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTACTGGGTATCGCCGCTGGTGTGGGCGTCTGGAAGGTTCGCCATCTTGCCGACAGCAAATTGCTTATCAaaga               <  2:87943/125‑1 (MQ=255)

                                                                                                                             cccGAATTAATCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTACTGGGTATCGCCGCTGGTGTGGGCGTCTGGAAGGTTCGCCATCTTGCCGACAGCAAATTGCTTATCAaaga               >  1:87943/1‑125 (MQ=255)

TCGTTGCAGGCAGATGAGATGGTTATTTGTAATGCGTTAATGCCAGTGATGCCCGTATGTGCCTGTGGCGATGTCTCCTTTTCGTCAGCAACGTTATATGAATATTTAGCCCCACTTTGTGAGCGCCCGAATTAGTCATGAAAAAAGTGTTATTGATAATCTTGTTATTGCTGGTGGTACTGGGTATCGCCGCTGGTGTGGGCGTCTGGAAGGTTCGCCATCTTGCCGACAGCAAATTGCTTATCAAAGAAGAGACGATATTT  >  NC_000913/1153975‑1154237

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A