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
A8 F1 I2 R1	765	53.2	2691310	93.4%	2513683	103.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,736,157	G→A	393 (TAG→TAA)	xylR →	xylose divergent operon transcriptional activator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,736,157	0	G	A	100.0%	160.2 / NA	50	393 (TAG→TAA)	xylR	xylose divergent operon transcriptional activator
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (25/25); total (25/25)

AACCACCTTGTCGATCAATGAGATATCGCAAATGTGCGGTTATCCATCGCTGCAATATTTCTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAGCG‑ATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGCTCGTAGCTCAA  >  NC_000913/3736022‑3736287

aaCCACCTTGTCGATCAATGAGATATCGCAAATGTGCGGTTATCCATCGCTGCAATATTTCTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACg‑a                                                                                                                                 >  2:150617/1‑139 (MQ=255)

aaCCACCTTGTCGATCAATGAGATATCGCAAATGTGCGGTTATCCATCGCTGCAATATTTCTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACg‑a                                                                                                                                 <  1:150617/139‑1 (MQ=255)

      cTTGTCGATCAATGAGATATCGCAAATGTGCGGTTATCCATCGCTGCAATATTTCTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAatgatg                                                                                                                            <  1:1191587/139‑1 (MQ=255)

               cAATGAGATATCGCAAATGTGCGGTTATCCATCGCTGCAATATTTCTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTc                                                                                                                   >  1:1119612/1‑139 (MQ=255)

               cAATGAGATATCGCAAATGTGCGGTTATCCATCGCTGCAATATTTCTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTc                                                                                                                   <  1:228964/139‑1 (MQ=255)

                        atCGCAAATGTGCGGTTATCCATCGCTGCAATATTTCTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTcaca                                                                                                          <  2:1119612/139‑1 (MQ=255)

                          cGCAAATGTGCGGTTATCCATCGCTGCAATATTTCTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGt                                                                                                              >  2:527526/1‑133 (MQ=255)

                          cGCAAATGTGCGGTTATCCATCGCTGCAATATTTCTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGt                                                                                                              <  1:527526/133‑1 (MQ=255)

                                tgtgCGGTTATCCATCGCTGCAATATTTCTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTaa                                                                                                  <  2:1138177/139‑1 (MQ=255)

                                   gCGGTTATCCATCGCTGCAATATTTCTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCg                                                                                                               >  1:105686/1‑123 (MQ=255)

                                   gCGGTTATCCATCGCTGCAATATTTCTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCg                                                                                                               <  2:105686/123‑1 (MQ=255)

                                       ttATCCATCGCTGCAATATTTCTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCg                                                                                           <  1:317612/139‑1 (MQ=255)

                                            cATCGCTGCAATATTTCTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCg                                                                                           >  1:8104/1‑134 (MQ=255)

                                            cATCGCTGCAATATTTCTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCg                                                                                           <  2:8104/134‑1 (MQ=255)

                                                 cTGCAATATTTCTACTCTGTTTTTAAAAAGGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACg‑a                                                                                                                                 >  1:392362/1‑90 (MQ=255)

                                                 cTGCAATATTTCTACTCTGTTTTTAAAAAGGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACg‑a                                                                                                                                 <  2:392362/90‑1 (MQ=255)

                                                 cTGCAATATTTCTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCgg                                                                                 >  2:382270/1‑139 (MQ=255)

                                                 cTGCAATATTTCTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCgg                                                                                 >  2:118640/1‑139 (MQ=255)

                                                           tCTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTg                                                                       <  1:118640/139‑1 (MQ=255)

                                                            cTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTg                                                                       >  2:42687/1‑138 (MQ=255)

                                                            cTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTg                                                                       <  1:42687/138‑1 (MQ=255)

                                                                tctGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGc                                                                  <  1:382270/139‑1 (MQ=255)

                                                                 ctGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGcc                                                                 >  1:417355/1‑139 (MQ=255)

                                                                  tGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCt                                                                >  2:738134/1‑139 (MQ=255)

                                                                   gTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCtt                                                               >  1:72688/1‑139 (MQ=255)

                                                                              aGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTGACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTAc                                                    >  1:803203/1‑139 (MQ=255)

                                                                              aGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTAc                                                    >  2:976431/1‑139 (MQ=255)

                                                                              aGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTAc                                                    >  1:29165/1‑139 (MQ=255)

                                                                                   atGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGGGTGAACGCCTTATCCGACCTACCCGcc                                               <  2:803203/139‑1 (MQ=255)

                                                                                            cgCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGAt                                      >  1:839262/1‑139 (MQ=255)

                                                                                                   agagTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGc                               <  2:29165/139‑1 (MQ=255)

                                                                                                      gTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTgg                                                                                        <  2:1129207/79‑1 (MQ=255)

                                                                                                      gTATCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTgg                                                                                        >  1:1129207/1‑79 (MQ=255)

                                                                                                         tCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCg                                                                                           >  2:1270500/1‑73 (MQ=255)

                                                                                                         tCGCGATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCg                                                                                           <  1:1270500/73‑1 (MQ=255)

                                                                                                           gcgATGTAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACcaacaa                       <  1:200304/139‑1 (MQ=255)

                                                                                                                 tAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTcaca                                                                                                          <  1:1340371/50‑1 (MQ=255)

                                                                                                                 tAAATAGCGAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTcaca                                                                                                          >  2:1340371/1‑50 (MQ=255)

                                                                                                                         gAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATgcg                                                                            <  2:244060/72‑1 (MQ=255)

                                                                                                                         gAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATgcg                                                                            >  1:244060/1‑72 (MQ=255)

                                                                                                                         gAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTa                                                     >  1:1271081/1‑95 (MQ=38)

                                                                                                                         gAGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTa                                                     <  2:1271081/95‑1 (MQ=38)

                                                                                                                          aGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATg                                                                              <  1:796992/69‑1 (MQ=255)

                                                                                                                          aGGTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATg                                                                              >  2:796992/1‑69 (MQ=255)

                                                                                                                           ggTCATGTTGTAACGAATGATGAGAATTGTCGGCg                                                                                                               >  2:666959/1‑35 (MQ=255)

                                                                                                                           ggTCATGTTGTAACGAATGATGAGAATTGTCGGCg                                                                                                               <  1:666959/35‑1 (MQ=255)

                                                                                                                           ggTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCg                                                                                           <  1:806845/55‑1 (MQ=255)

                                                                                                                           ggTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCg                                                                                           >  2:806845/1‑55 (MQ=255)

                                                                                                                           ggTCATGTTGTAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGCTCGTAg       >  2:1050539/1‑139 (MQ=255)

                                                                                                                                tgttgtAACGAATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGCTCGTAGCTCaa  <  1:1050539/139‑1 (MQ=255)

AACCACCTTGTCGATCAATGAGATATCGCAAATGTGCGGTTATCCATCGCTGCAATATTTCTACTCTGTTTTTAAAAAAGCATATGACACGACGCCAAAAGAGTATCGCGATGTAAATAGCGAGGTCATGTTGTAGCG‑ATGATGAGAATTGTCGGCGTCACATCAGGTAACGCTGCGTGGTTGTCGGATGCGGCGTGAACGCCTTATCCGACCTACCCGCCAGGCATGATAAAACGCACCAACAACGCTTCAGGCTCGTAGCTCAA  >  NC_000913/3736022‑3736287

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A