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	3,096,673	G→A	97 (TAG→TAA)	yggU →	UPF0235 family protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,096,673	0	G	A	100.0%	80.4 / NA	26	97 (TAG→TAA)	yggU	UPF0235 family protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (12/14); total (12/14)

GTTGCCAAAAGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAGGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCTCGGCGTTGATTCCGCTGAA  >  NC_000913/3096563‑3096800

gTTGCCAAAAGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCa                                                                                                     <  2:1265997/139‑1 (MQ=255)

        aaGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCaa                                                                                             <  2:96569/139‑1 (MQ=255)

         aGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAAt                                                                                            <  2:903757/139‑1 (MQ=255)

                     aTTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTg                                                                                >  2:433233/1‑139 (MQ=255)

                             aGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGt                                                                                                                               >  1:503815/1‑84 (MQ=255)

                                cGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGa                                                                           <  1:1138760/133‑1 (MQ=255)

                                cGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGa                                                                           >  2:1138760/1‑133 (MQ=255)

                                            ccACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAg                                                         >  2:1570935/1‑139 (MQ=255)

                                             cacaAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGc                                                        >  2:1028197/1‑139 (MQ=255)

                                                     aaTTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCgg                                                <  1:1421594/139‑1 (MQ=255)

                                                               aTTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATc                                      <  1:1570935/139‑1 (MQ=255)

                                                                ttAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCg                                     >  1:895150/1‑139 (MQ=255)

                                                                 tAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACtt                                                   >  2:70667/1‑124 (MQ=255)

                                                                 tAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACtt                                                   <  1:70667/124‑1 (MQ=255)

                                                                        caacaaATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTaaa                                                                                   <  1:1035850/85‑1 (MQ=255)

                                                                        caacaaATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTaaa                                                                                   >  2:1035850/1‑85 (MQ=255)

                                                                        caacaaATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCaa                             >  1:1305684/1‑139 (MQ=255)

                                                                         aacaaATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGc                                                                                                      <  2:1315284/65‑1 (MQ=255)

                                                                         aacaaATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGc                                                                                                      >  1:1315284/1‑65 (MQ=255)

                                                                         aacaaATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCaaa                            <  1:935687/139‑1 (MQ=255)

                                                                                     cAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCTCGGCg                >  2:1054581/1‑139 (MQ=255)

                                                                                          aTCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATc                                      <  1:91391/112‑1 (MQ=255)

                                                                                          aTCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATc                                      >  2:91391/1‑112 (MQ=255)

                                                                                           tCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCTCGGCGTTGAtt          <  1:433233/139‑1 (MQ=255)

                                                                                              cggcgTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCTCGGCGTTGATTCCg       <  1:1054581/139‑1 (MQ=255)

                                                                                              cggcgTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCTCGGCGTTGATTCCg       <  1:1028197/139‑1 (MQ=255)

                                                                                                   ttaattaattaaGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCTCGGCGTTGATTCCGCTgaa  >  1:1372834/1‑139 (MQ=255)

GTTGCCAAAAGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAGGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCTCGGCGTTGATTCCGCTGAA  >  NC_000913/3096563‑3096800

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