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
A2 F1 I1 R1	748	32.0	1685426	92.6%	1560704	103.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,789,352	G→A	R244C (CGC→TGC)	waaH ←	LPS(HepIII)‑glucuronic acid glycosyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,789,352	0	G	A	100.0%	102.6 / NA	34	R244C (CGC→TGC)	waaH	LPS(HepIII)‑glucuronic acid glycosyltransferase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (12/22); total (12/22)

GTTGGCGGGTAAGAATATCCGGCTCTTTGCGCACCGCATGGCAAACACGCAATGCCTCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCGGGTAATCTTAATATAGTGACGTTGATAATTAAGGTTTTTATTCCCTTGTCTATGCAACCGACTCACTGACGTATTATGCAGATAATATTTATATAATGATTGCTCGGTATATCGCGCACGCAGCG  >  NC_000913/3789217‑3789477

gTTTGCCGGGAAGAATATCCGGCGCTTTGCGCACCGCATGGCAAACACGCAATGGCTCGTAAGTTATTTGCTGATGAAATTCCGTATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGt                                                                                                                            <  2:552430/139‑1 (MQ=255)

gTTGGCGGGTAAGAATATCCGGCTCTTTGCGCACCGCATGGCAAACACGCAATGCCTCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGt                                                                                                                            <  1:252696/139‑1 (MQ=255)

gTTGGCGGGTAAGAATATCCGGCTCTTTGCGCACCGCATGGCAAACACGCAATGCCTCGTAAGTTATTTGCTAATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGt                                                                                                                            <  1:141512/139‑1 (MQ=255)

                              gcACCGCATGGCAAACACGCAATGCCTCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGTAATCTTAATATAGTGACGTTGATAATTAAg                                                                                              <  1:722836/139‑1 (MQ=255)

                               cACCGCATGGCAAACACGCAATGCCTCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGt                                                                                                                            >  2:535521/1‑108 (MQ=255)

                               cACCGCATGGCAAACACGCAATGCCTCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGt                                                                                                                            <  1:535521/108‑1 (MQ=255)

                                     aTGGCAAACACGCAATGCCTCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGTAATCTTAATATAGTGACGTTGATAATTAAGGTTTTTa                                                                                       <  2:476769/139‑1 (MQ=255)

                                         cAAACACGCAATGCCTCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGTAATCTTAATATAGTGACGTTGATAATTAAGGTTTTTATTcc                                                                                   <  1:733781/139‑1 (MQ=255)

                                            acacGCAATGCCTCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGTAATCTTAATATAGTGACGTTGATACTTAAGGTTTTTATTCCCtt                                                                                >  2:687807/1‑139 (MQ=255)

                                            acacGCAATGCCTCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGTAATCTTAATATAGTGACGTTGATAATTAAGGTTTTTATTcc                                                                                   >  1:16878/1‑136 (MQ=255)

                                            acacGCAATGCCTCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGTAATCTTAATATAGTGACGTTGATAATTAAGGTTTTTATTcc                                                                                   <  2:16878/136‑1 (MQ=255)

                                            acacGCAATGCCTCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGTAATCTTAATATAGTGACGTTGATAATTAAGGTTTTTATTCCCtt                                                                                <  2:219029/139‑1 (MQ=255)

                                                  aaTGCCTCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGt                                                                                                                            <  1:501707/89‑1 (MQ=255)

                                                  aaTGCCTCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGt                                                                                                                            >  2:501707/1‑89 (MQ=255)

                                                       cTCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGt                                                                                                                            >  1:732201/1‑84 (MQ=255)

                                                       cTCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGt                                                                                                                            <  2:732201/84‑1 (MQ=255)

                                                       cTCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGt                                                                                                                            <  1:187338/84‑1 (MQ=255)

                                                       cTCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGt                                                                                                                            >  2:187338/1‑84 (MQ=255)

                                                        tCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGt                                                                                                                            <  1:536720/83‑1 (MQ=255)

                                                        tCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGt                                                                                                                            >  2:536720/1‑83 (MQ=255)

                                                          gTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGt                                                                                                                            <  1:475733/81‑1 (MQ=255)

                                                          gTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGt                                                                                                                            >  2:475733/1‑81 (MQ=255)

                                                                 aTTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGt                                                                                                                            >  1:285210/1‑74 (MQ=255)

                                                                 aTTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGt                                                                                                                            <  2:285210/74‑1 (MQ=255)

                                                                 aTTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGTAATCTTAATATAGTGACGTTGATAATTAAGGTTTTTATTCCCTTGTCTATGCAACCGACTCACTg                                                           <  2:101134/139‑1 (MQ=255)

                                                                         atgaAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGTAATCTTAATATAGTGACGTTGATAATTAAGGTTTTTATTcc                                                                                   >  1:798475/1‑107 (MQ=255)

                                                                         atgaAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGTAATCTTAATATAGTGACGTTGATAATTAAGGTTTTTATTcc                                                                                   <  2:798475/107‑1 (MQ=255)

                                                                                tCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGTAATCTTAATATAGTGACGTTGATAATTAAGGTATTTATTCCCTTGTCTATGCAACCGACTCACTGACGTATTATGCAGat                                            <  2:61416/139‑1 (MQ=255)

                                                                                 ccGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGTAATCTTAATATAGTGACGTTGATAATTAAGGTTTTTATTcc                                                                                   >  2:355202/1‑99 (MQ=255)

                                                                                 ccGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGTAATCTTAATATAGTGACGTTGATAATTAAGGTTTTTATTcc                                                                                   <  1:355202/99‑1 (MQ=255)

                                                                                                   tGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGTAATCTTAATATAGTGACGTTGATAATTAAGGTTTTTATTccc                                                                                  >  1:161581/1‑82 (MQ=255)

                                                                                                   tGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCAGGTAATCTTAATATAGTGACGTTGATAATTAAGGTTTTTATTccc                                                                                  <  2:161581/82‑1 (MQ=255)

                                                                                                      cGGAATCATTTCGCATCAATTTCTACCATAGGCAAGTAATCTTAATATAGTGCCGTTAATAATTAAGGTTTTTATCTCCTAGTCTATGCCACCGACTCACTGACGTATTAGGCAGATACTATCTATATATTAATTGCTc                      <  2:548773/139‑1 (MQ=255)

                                                                                                                          ttCTCCAGCAGGCAGGTAATCTTAATATAGTGACGTTGATAATTAAGGTTTTTATTCCCTTGTCTATGCAACCGACTCACTGACGTATTATGCAGATAATATTTATATAATGATTGCTCGGTATATCGCGCACGCAgcg  <  1:722852/139‑1 (MQ=255)

                                                                                                                                  caggcaggTAATCTTAATATAGTGACGTTGATAATTAATGTTTTTATTCCCTTGTCTATGCAACCGACTCACTGACGtattat                                                  <  1:806210/83‑1 (MQ=255)

                                                                                                                                  caggcaggTAATCTTAATATAGTGACGTTGATAATTAAGGTTTTTATTCCCTTGTCTATGCAACCGACTCACTGACGtattat                                                  >  2:806210/1‑83 (MQ=255)

GTTGGCGGGTAAGAATATCCGGCTCTTTGCGCACCGCATGGCAAACACGCAATGCCTCGTAAGTTATTTGCTGATGAAATTCCGGATAAATCATAATTTTGTCGGCATAATTTCGATTTAATTTCTCCAGCAGGCGGGTAATCTTAATATAGTGACGTTGATAATTAAGGTTTTTATTCCCTTGTCTATGCAACCGACTCACTGACGTATTATGCAGATAATATTTATATAATGATTGCTCGGTATATCGCGCACGCAGCG  >  NC_000913/3789217‑3789477

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A