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 I2 R1	774	49.2	2112398	96.9%	2046913	118.5

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%	103.7 / NA	33	97 (TAG→TAA)	yggU	UPF0235 family protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (13/20); total (13/20)

TGAAGTTTCTCGGTAAGCAATTCCGGGTTGCCAAAAGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAGGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCTCGGCGTTGATTCCGCTGAAGAAAC  >  NC_000913/3096537‑3096805

tGAAGTTTCTCGGTAAGCAATTCCGGGTTGCCAAAAGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGt                                                                                                                                    >  1:351569/1‑139 (MQ=255)

  aaGTTTCTCGGTAAGCAATTCCGGGTTGCCAAAAGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTAt                                                                                                                                  >  2:179069/1‑139 (MQ=255)

        ctcGGTAAGCAATTCCGGGTTGCCAAAAGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATg                                                                                                                            <  2:742175/139‑1 (MQ=255)

                       cGGGTTGCCAAAAGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTc                                                                                                             >  2:924503/1‑139 (MQ=255)

                          gTTGCCAAAAGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCa                                                                                                          <  2:116839/139‑1 (MQ=255)

                                aaaaGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGc                                                                                                    <  1:968116/139‑1 (MQ=255)

                                  aaGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCaa                                                                                                  <  1:154009/139‑1 (MQ=255)

                                          tggtgATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTa                                                                                          <  1:652213/139‑1 (MQ=255)

                                                 tGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCg                                                                                   <  1:287976/139‑1 (MQ=255)

                                                 tGAAAAAGGCGAACGTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCg                                                                                   <  2:262106/139‑1 (MQ=255)

                                                             aCTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTc                                                                       <  2:740326/139‑1 (MQ=255)

                                                              cTTGGCCGCCACAAACAAATTAAGATCATTAATCCGCAACAAATCCCGCCAGAACTCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCg                                                                      <  2:694735/139‑1 (MQ=255)

                                                              cTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAAGTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAACTGCGTGAGCTGGCGTCg                                                                      <  1:659307/139‑1 (MQ=255)

                                                                       cacaAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGc                                                                                                    >  2:203281/1‑100 (MQ=255)

                                                                       cacaAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGc                                                                                                    <  1:203281/100‑1 (MQ=255)

                                                                       cacaAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGc                                                             >  1:786217/1‑139 (MQ=255)

                                                                            acaaaTTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACtt                                                        <  2:513691/139‑1 (MQ=255)

                                                                              aaaTTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCg                                                      <  1:179069/139‑1 (MQ=255)

                                                                                      aTCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAg                                                                                                                     <  1:241989/68‑1 (MQ=255)

                                                                                      aTCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAg                                                                                                                     >  2:241989/1‑68 (MQ=255)

                                                                                        cATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGatat                                            >  1:574993/1‑139 (MQ=255)

                                                                                           tAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCaaaaa                                                                                                                      >  2:521960/1‑62 (MQ=255)

                                                                                           tAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCaaaaa                                                                                                                      <  1:521960/62‑1 (MQ=255)

                                                                                                          cccGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCt                          <  2:940797/139‑1 (MQ=255)

                                                                                                             gCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTc                                                       <  2:644258/107‑1 (MQ=255)

                                                                                                             gCCAGAAATCGCGGCGTTAATTAAATAAGTATCCTATGCAGAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTc                                                       >  1:644258/1‑107 (MQ=255)

                                                                                                                  aaaTCGCGGCGTTAATTAATGAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCTCGGCGtag                  >  2:620863/1‑137 (MQ=255)

                                                                                                                        cggcgTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCTCGGCGTTGATTCCg            >  2:178889/1‑139 (MQ=255)

                                                                                                                        cggcgTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCTCGGCGTTGATTCCg            >  1:454975/1‑139 (MQ=255)

                                                                                                                         ggcgTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGc                                                                                                    <  2:290915/50‑1 (MQ=255)

                                                                                                                         ggcgTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGc                                                                                                    >  1:290915/1‑50 (MQ=255)

                                                                                                                            gTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCTCGGCGTTGATTCCGCTga        <  1:896540/139‑1 (MQ=255)

                                                                                                                                  taattaAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCTCGGCGTTGATTCCGCTGAAGAAAc  <  2:1054295/139‑1 (MQ=255)

TGAAGTTTCTCGGTAAGCAATTCCGGGTTGCCAAAAGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAGGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCTCGGCGTTGATTCCGCTGAAGAAAC  >  NC_000913/3096537‑3096805

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A