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
A5 F1 I2 R1	772	77.0	3769570	91.6%	3452926	105.3

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%	105.9 / NA	33	97 (TAG→TAA)	yggU	UPF0235 family protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (17/16); total (17/16)

GTTTCTCGGTAAGCAATTCCGGGTTGCCAAAAGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAGGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCTCGGCGTTGATTCCGCTGAAGAAA  >  NC_000913/3096541‑3096804

gTTTCTCGGTAAGCAATTCCGGGTTGCCAAAAGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATcc                                                                                                                               <  2:1408309/139‑1 (MQ=255)

      cGGTAAGCAATTCCGGGTTGCCAAAAGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCCTTAATTAATTAAGTATCCTATGCa                                                                                                                         <  1:1275860/139‑1 (MQ=255)

          aaGCAATTCCGGGTTGCCAAAAGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCaaaaa                                                                                                                     >  2:1681102/1‑139 (MQ=255)

                  ccGGGTTGCCAAAAGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCt                                                                                                             <  1:803344/139‑1 (MQ=255)

                     ggTTGCCAAAAGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCt                                                                                                             <  2:616098/136‑1 (MQ=255)

                     ggTTGCCAAAAGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCt                                                                                                             >  1:616098/1‑136 (MQ=255)

                      gTTGCCAAAAGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCa                                                                                                         <  1:133743/139‑1 (MQ=255)

                            aaaaGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCACAACCGGc                                                                                                   <  2:1079026/139‑1 (MQ=255)

                                                         aCTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCCGAAATCGCGGCGTTAATTAATGAAATATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTc                                                                      >  2:1150662/1‑139 (MQ=255)

                                                                                    cATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGatat                                           >  1:496798/1‑139 (MQ=255)

                                                                                      ttAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCg                                         >  1:1681875/1‑139 (MQ=255)

                                                                                          tCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACt                                                        >  1:660865/1‑120 (MQ=255)

                                                                                          tCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACt                                                        <  2:660865/120‑1 (MQ=255)

                                                                                               aacaaATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATcc                                                                                                                               >  1:598824/1‑44 (MQ=255)

                                                                                               aacaaATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATcc                                                                                                                               <  2:598824/44‑1 (MQ=255)

                                                                                               aacaaATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCt                                                                                                                              >  2:1378109/1‑45 (MQ=255)

                                                                                               aacaaATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCt                                                                                                                              <  1:1378109/45‑1 (MQ=255)

                                                                                               aacaaATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCaaa                                >  2:1726990/1‑139 (MQ=255)

                                                                                                 caaATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTc                                                                                                            >  2:991782/1‑61 (MQ=255)

                                                                                                 caaATCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTc                                                                                                            <  1:991782/61‑1 (MQ=255)

                                                                                                    aTCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCt                                                 <  2:1005516/117‑1 (MQ=255)

                                                                                                    aTCCCGCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCt                                                 >  1:1005516/1‑117 (MQ=255)

                                                                                                         gCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGc                                                                                   <  2:1203603/78‑1 (MQ=255)

                                                                                                         gCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGc                                                                                   >  1:819824/1‑78 (MQ=255)

                                                                                                         gCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGc                                                                                   >  1:1203603/1‑78 (MQ=255)

                                                                                                         gCCAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGc                                                                                   <  2:819824/78‑1 (MQ=255)

                                                                                                           cAGAAATCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCTCGGCg                    >  2:57148/1‑139 (MQ=255)

                                                                                                              aaaTCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATc                                          <  2:1695268/114‑1 (MQ=255)

                                                                                                              aaaTCGCGGCGTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATc                                          >  1:1695268/1‑114 (MQ=255)

                                                                                                                        gTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCgg                                                                                           <  2:1398159/55‑1 (MQ=255)

                                                                                                                        gTTAATTAATTAAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCgg                                                                                           >  1:1398159/1‑55 (MQ=255)

                                                                                                                            attaattaAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGT‑AAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCTCGGCGTTGATTCCGCTGAAGaaa  <  1:1681102/139‑1 (MQ=255)

                                                                                                                             ttaattaaGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCTCGGCGTTGATTCCGCTGAAGaaa  <  2:1681875/139‑1 (MQ=255)

                                                                                                                                 ttaAGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGt                                                   >  2:1652574/1‑86 (MQ=255)

GTTTCTCGGTAAGCAATTCCGGGTTGCCAAAAGCCAGGTGGTGATTGAAAAAGGCGAACTTGGCCGCCACAAACAAATTAAAATCATTAATCCGCAACAAATCCCGCCAGAAATCGCGGCGTTAATTAATTAGGTATCCTATGCAAAAAGTTGTCCTCGCAACCGGCAATGTCGGTAAAGTGCGTGAGCTGGCGTCGCTGCTTAGCGACTTCGGTCTTGATATCGTGGCCCAAACAGACCTCGGCGTTGATTCCGCTGAAGAAA  >  NC_000913/3096541‑3096804

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `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