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 F48 I1 R1	45	83.3	2696702	99.2%	2675128	139.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	559,046	G→T	G25* (GGA→TGA)	sfmC →	putative fimbrial chaperone SfmC

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	559,046	0	G	T	100.0%	101.5 / NA	29	G25* (GGA→TGA)	sfmC	putative fimbrial chaperone SfmC
Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (16/13); total (16/13)

ACCAAAGCAATCATTTCTTTATATTCCTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAACTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCGGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTATGGATTAGAAATAGCCATACCAATGAGCGCTTTCTGGTCAATTCGTGGATTGAAAACAGCAGCGGTGTAAAAGA  >  NC_000913/558909‑559182

aCCAAAGCAATCATTTCTTTATATTCCTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAACTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCTGa                                                                                                                                        >  1:525634/1‑140 (MQ=255)

    aaGCAATCATTTCTTTATATTCCTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAACTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCTGAGGGa                                                                                                                                    <  1:1110525/140‑1 (MQ=255)

          acATTTCTTTATATTCCTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAACTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCTGAGGGATCGCAt                                                                                                                              <  2:19096/139‑1 (MQ=255)

                     tatTCCTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAACTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCAcg                                                                                                                   <  1:1272181/140‑1 (MQ=255)

                        tCCTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAACTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGt                                                                                                                <  1:1126139/140‑1 (MQ=255)

                           ttATTTTTGCCGTCAGGAATACACAAGGCGTATTAACTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGtatt                                                                                                             >  1:332729/1‑140 (MQ=255)

                                   gCCGTCAGGAATACACAAGGCGTATTAACTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATcc                                                                                                     >  1:1016946/1‑140 (MQ=255)

                                                     ggCGTATTAACTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGAc                                                                                   >  1:1195824/1‑140 (MQ=255)

                                                     ggCGTATTAACTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGAc                                                                                   >  2:347520/1‑140 (MQ=255)

                                                        gTATTAACTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGc                                                                                >  1:959888/1‑140 (MQ=255)

                                                            tAACTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTa                                                                            <  1:1271552/140‑1 (MQ=255)

                                                            tAACTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTa                                                                            <  2:672962/140‑1 (MQ=255)

                                                                   gatgaCTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTATGGATTa                                                                     >  2:196078/1‑140 (MQ=255)

                                                                         tAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTATGGATTAGAAATa                                                               >  2:282870/1‑140 (MQ=255)

                                                                                 aGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTATGGATTAGAAATAGCCATAcc                                                       >  2:1344587/1‑140 (MQ=255)

                                                                                       tGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTATGGATTAGAAATAGCCATACCAATGAg                                                 <  2:959888/140‑1 (MQ=255)

                                                                                             tCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTATGGATTAGAAATAGCCATACCAATGAGCGCttt                                           <  2:332729/140‑1 (MQ=255)

                                                                                                         atttaATCATTTCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTATGGATTAGAAATAGCCATACCAATGAGCGCTTTCTGGTCAATTCg                               >  1:828696/1‑140 (MQ=255)

                                                                                                             aaTCATTTCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTATGGATTAGAAATAGCCATACCAATGAGCGCTTTCTGGTCAATTCGTGGa                           <  2:1016946/140‑1 (MQ=255)

                                                                                                             aaTCATTTCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTATGGATTAGAAATAGCCATACCAATGAGCGCTTTCTGGTCAATTCGTGGa                           <  1:282870/140‑1 (MQ=255)

                                                                                                               tCATTTCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTATGGATTAGAAATAGCCATACCAATGAGCGCTTTCTGGTCAATTCGTGGAtt                         >  1:394366/1‑140 (MQ=255)

                                                                                                                  tttCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTATGGATTAGAAATAGCCATACCAATGAGCGCTTTCTGGTCAATTCGTGGATTGaa                      <  1:347520/140‑1 (MQ=255)

                                                                                                                   ttCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTATGGATTAGAAATAGCCATACCAATGAGCGCTTTCTGGTCAATTCGTGGa                           >  1:625570/1‑134 (MQ=255)

                                                                                                                   ttCGGCCAGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGAAGCTAAACAGACTGCGGTATGGATTAGAAATAGCCATACCAATGAGCGCTTTCTGGTCAATTCGTGGa                           <  2:625570/134‑1 (MQ=255)

                                                                                                                          aGCGCCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTATGGATTAGAAATAGCCATACCAATGAGCGCTTTCTGGTCAATTCGTGGATTGAAAAcagcag              <  2:394366/140‑1 (MQ=255)

                                                                                                                            cgcCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTATGGATTAGAAATAGCCATACCAATGAGCGCTTTCTGGTCAATTCGTGGATTGAAAACAGCAGCg            >  2:10782/1‑140 (MQ=255)

                                                                                                                            cgcCCATGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTATGGATTAGAAATAGCCATACCAATGAGCGCTTTCTGGTCAATTCGTGGATTGAAAACAGCAGCg            >  1:1041951/1‑140 (MQ=255)

                                                                                                                                 aTGCTGCCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTATGGATTAGAAATAGCCATACCAATGAGCGCTTTCTGGTCAATTCGTGGATTGAAAACAGCAGCGGTGTa       >  1:595362/1‑140 (MQ=255)

                                                                                                                                      gcCTGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTATGGATTAGAAATAGCCATACCAATGAGCGCTTTCTGGTCAATTCGTGGATTGAAAACAGCAGCGGTGTaaaaga  >  2:53449/1‑140 (MQ=255)

ACCAAAGCAATCATTTCTTTATATTCCTTATTTTTGCCGTCAGGAATACACAAGGCGTATTAACTATGATGACTAAAATAAAGTTATTGATGCTCATTATATTTTATTTAATCATTTCGGCCAGCGCCCATGCTGCCGGAGGGATCGCATTAGGTGCCACGCGTATTATTTATCCCGCTGATGCTAAACAGACTGCGGTATGGATTAGAAATAGCCATACCAATGAGCGCTTTCTGGTCAATTCGTGGATTGAAAACAGCAGCGGTGTAAAAGA  >  NC_000913/558909‑559182

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A