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
A10 F1 I1 R1	759	65.2	3386260	90.7%	3071337	101.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,966,188	C→T	749 (TAG→TAA)	ptsP ←	PEP‑protein phosphotransferase enzyme I, GAF domain containing protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,966,188	0	C	T	100.0%	114.0 / NA	36	749 (TAG→TAA)	ptsP	PEP‑protein phosphotransferase enzyme I, GAF domain containing protein
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (22/14); total (22/14)

GATTGAAATGCGCGCCGCAGGTTTCAGGCGCTCCAAAGGTGCGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGCTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCTTCGGCATAATCAATGCGC  >  NC_000913/2966080‑2966323

gATTGAAATGCGCGCCGCAGGTTTCAGGCGCTCCAAAGGTGCGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATg                                                                                                           >  1:1504094/1‑139 (MQ=255)

    gAAATGCGCGCCGCAGGTTTCAGGCGCTCCAAAGGTGCGAATAATAGCACAAGGGGACCTTGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTcc                                                                                                                              <  2:982399/116‑1 (MQ=255)

    gAAATGCGCGCCGCAGGTTTCAGGCGCTCCAAAGGTGCGAATAATAGCACAAGGGGACCTTGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTcc                                                                                                                              >  1:982399/1‑116 (MQ=255)

               cgcAGGTTTCAGGCGCTCCAAAGGTGCGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATa                                                                                            >  1:109813/1‑139 (MQ=255)

                                         cGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTcc                                                                                                                              <  1:1341077/79‑1 (MQ=255)

                                         cGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTcc                                                                                                                              >  2:1341077/1‑79 (MQ=255)

                                         cGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCg                                                                        <  2:1611558/133‑1 (MQ=255)

                                         cGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCg                                                                        >  1:1611558/1‑133 (MQ=255)

                                         cGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTc                                                                  >  2:1226050/1‑139 (MQ=255)

                                                     caAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTg                                                      <  1:1610946/139‑1 (MQ=255)

                                                     caAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTg                                                      <  2:109813/139‑1 (MQ=255)

                                                        ggggACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTgcgc                                                   >  1:421507/1‑139 (MQ=255)

                                                           gACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTc                                                >  1:139985/1‑139 (MQ=255)

                                                             ccTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCa                                              >  1:4242/1‑139 (MQ=255)

                                                                ggctggTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGAc                                           >  1:873083/1‑139 (MQ=255)

                                                                   tggTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTg                                                      >  2:1603446/1‑125 (MQ=255)

                                                                   tggTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTg                                                      <  1:1603446/125‑1 (MQ=255)

                                                                      ttGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAg                                                                                                                     <  1:1538237/59‑1 (MQ=255)

                                                                      ttGCCGGATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAg                                                                                                                     >  2:1538237/1‑59 (MQ=255)

                                                                           ggATACCGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCa                                >  2:32207/1‑139 (MQ=255)

                                                                                 cGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACg                                       <  2:389050/126‑1 (MQ=255)

                                                                                 cGTTAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACg                                       >  1:389050/1‑126 (MQ=255)

                                                                                   ttAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTg                                                      <  1:73662/109‑1 (MQ=255)

                                                                                   ttAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTg                                                      >  2:73662/1‑109 (MQ=255)

                                                                                   ttAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTc                        >  2:358548/1‑139 (MQ=255)

                                                                                   ttAAAAGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTc                        >  1:1567768/1‑139 (MQ=255)

                                                                                      aaaGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACtt                                                                   <  1:1527574/93‑1 (MQ=255)

                                                                                      aaaGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACtt                                                                   >  2:1527574/1‑93 (MQ=255)

                                                                                       aaGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCt                    <  2:1181257/139‑1 (MQ=255)

                                                                                       aaGATATGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCt                    <  1:358548/139‑1 (MQ=255)

                                                                                           tatGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCa                                >  1:156536/1‑123 (MQ=255)

                                                                                           tatGTATATGATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCa                                <  2:156536/123‑1 (MQ=255)

                                                                                                    gATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCtt                                                 >  2:134840/1‑97 (MQ=255)

                                                                                                    gATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCtt                                                 <  1:134840/97‑1 (MQ=255)

                                                                                                    gATCCGCGTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCTTCGGCATAATCaa       >  2:646281/1‑139 (MQ=255)

                                                                                                        cgcgTTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCTTCGGCATAATCAATgcg   >  1:1670727/1‑139 (MQ=255)

                                                                                                         gcgtTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTg                                                                                     >  2:1302262/1‑56 (MQ=255)

                                                                                                         gcgtTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCTTCGGCATAATCAATgcgc  >  1:522940/1‑139 (MQ=255)

GATTGAAATGCGCGCCGCAGGTTTCAGGCGCTCCAAAGGTGCGAATAATAGCACAAGGGGACCTGGCTGGTTGCCGGATACCGTTAAAAGATATGTATATGATCCGCGCTATAACCCTCCGCGAATCAGCCCGCCCATGCCGCGACGCTCCATAAAGGCTGCAACCTGATGGCGAACTTCGGTCGCCAGTTGCGCTTCCAGACTACGCTGCGCAAGATTTTCTGCTTCGGCATAATCAATGCGC  >  NC_000913/2966080‑2966323

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