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
A14 F1 I1 R1	770	68.5	3470224	91.7%	3182195	103.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,499,500	G→A	302 (TAG→TAA)	insD1 →	IS2 transposase TnpB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,499,500	0	G	A	100.0%	124.7 / NA	45	302 (TAG→TAA)	insD1	IS2 transposase TnpB
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (23/22); total (23/22)

GCAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAA  >  NC_000913/4499375‑4499612

gCAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAcc                                                                                                     <  1:1448747/139‑1 (MQ=11)

                          aTGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACGGATAttt                                                                           >  1:1260144/1‑139 (MQ=255)

                          aTGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACGGATAttt                                                                           >  1:1297221/1‑139 (MQ=255)

                           tGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGGAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACGGATAtttt                                                                          <  2:1073241/139‑1 (MQ=255)

                            ggCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAcc                                                                                                     <  2:221764/111‑1 (MQ=11)

                            ggCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAcc                                                                                                     >  1:221764/1‑111 (MQ=11)

                            ggCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACgg                                                                                 <  1:1061049/131‑1 (MQ=255)

                            ggCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACgg                                                                                 >  2:1061049/1‑131 (MQ=255)

                             gCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTtat                                                                        >  1:373106/1‑139 (MQ=255)

                              cATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGat                                                                                           <  2:846150/119‑1 (MQ=255)

                              cATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGat                                                                                           >  1:846150/1‑119 (MQ=255)

                              cATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTtata                                                                       <  2:373106/139‑1 (MQ=255)

                                tCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAcc                                                                                                     <  2:316449/107‑1 (MQ=11)

                                tCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAcc                                                                                                     >  1:316449/1‑107 (MQ=11)

                                                   tATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCtt                                                                                                   <  2:1038884/90‑1 (MQ=18)

                                                   tATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCtt                                                                                                   >  1:1038884/1‑90 (MQ=18)

                                                    aTCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGc                                                 <  2:1297221/139‑1 (MQ=255)

                                                    aTCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGc                                                 <  2:1260144/139‑1 (MQ=255)

                                                     tcgctcgcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAcc                                                                                                     <  2:396590/86‑1 (MQ=14)

                                                     tcgctcgcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAcc                                                                                                     >  1:396590/1‑86 (MQ=14)

                                                          cgcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGat                                                                                           <  2:937343/91‑1 (MQ=255)

                                                          cgcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGat                                                                                           >  1:937343/1‑91 (MQ=255)

                                                           gcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAcc                                                                                                     >  1:1378258/1‑80 (MQ=9)

                                                           gcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAcc                                                                                                     <  2:1378258/80‑1 (MQ=9)

                                                           gcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTa                                          >  1:755075/1‑139 (MQ=255)

                                                                  gAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGt                                   <  2:755075/139‑1 (MQ=255)

                                                                     tatCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGata                                                                                          <  2:600420/81‑1 (MQ=255)

                                                                     tatCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGata                                                                                          >  1:600420/1‑81 (MQ=255)

                                                                       tCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAcc                                                                                                     >  2:144453/1‑68 (MQ=9)

                                                                       tCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAcc                                                                                                     <  1:144453/68‑1 (MQ=14)

                                                                            ggCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACgg                                                                                 <  2:1564518/83‑1 (MQ=255)

                                                                            ggCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACgg                                                                                 >  1:1564518/1‑83 (MQ=255)

                                                                                           aTGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATc          >  2:363869/1‑139 (MQ=255)

                                                                                              ggTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGat                                                                                           >  1:465040/1‑55 (MQ=255)

                                                                                              ggTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGat                                                                                           <  2:465040/55‑1 (MQ=255)

                                                                                              ggTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAgg       >  1:634305/1‑139 (MQ=255)

                                                                                                   aGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGgaagaa  >  2:1641794/1‑139 (MQ=255)

                                                                                                        tAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACgg                                                                                 <  2:444488/55‑1 (MQ=255)

                                                                                                        tAACAGATGTCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACgg                                                                                 >  1:444488/1‑55 (MQ=255)

                                                                                                                 tCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACa                                                                     <  1:1645352/58‑1 (MQ=255)

                                                                                                                 tCTGGAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACa                                                                     >  2:1645352/1‑58 (MQ=255)

                                                                                                                     gAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTGCAGTCTGCCATATATGATTACCTGTGATCa         <  1:88937/114‑1 (MQ=255)

                                                                                                                     gAAATATAAGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTGCAGTCTGCCATATATGATTACCTGTGATCa         >  2:88937/1‑114 (MQ=255)

                                                                                                                        atatAAGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTtata                                                                       <  2:785667/49‑1 (MQ=255)

                                                                                                                        atatAAGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTtata                                                                       >  1:785667/1‑49 (MQ=255)

GCAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCACCTTGTGCTGATATGAATACGGATATTTTATACAGAATACTTTTCAGTACAAGCGACTGTATTACAGTCTGCCATATATGATTACCTGTGATCAGGAAGAA  >  NC_000913/4499375‑4499612

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `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