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
A3 F1 I1 R1	781	46.9	2231650	93.5%	2086592	109.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,433,164	C→T	287 (TAG→TAA)	qorB ←	NAD(P)H:quinone oxidoreductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,433,164	0	C	T	100.0%	75.1 / NA	25	287 (TAG→TAA)	qorB	NAD(P)H:quinone oxidoreductase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (16/9); total (16/9)

GCGTACAGCACGCCGCTAATCATTACTGGCATCCATTGATCTGTCAGAAGAAAGTTCAGGAAGCAGACATGATTGCTCCCGGCATCCCGTCATTATCAGAGAGGATGCGGGAGGATGCCACTTTAATTAACTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGCC  >  NC_000913/4433034‑4433277

gCGTACAGCACGCCGCTAATCATTACTGGCATCCATTGATCTGTCAGAAGAAAGTTCAGGAAGCAGACATGATTGCTCCCGGCATCCCGTCATTATCAGAGAGGATGCGGGAGGATGCCACTTTAATTAATTAGttatt                                                                                                           <  2:811976/139‑1 (MQ=255)

  gTACAGCACGCCGCTAATCATTACTGGCATCCATTGATCTGTCAGAAGAAAGTTCAGGAAGCAGACATGATTGCTCCCGGCATCCCGTCATTATCAGAGAGGATGCGGGAGGATGCCACTTTAATTAATTAGTTATTaa                                                                                                         >  2:404528/1‑139 (MQ=255)

                              aTCCATTGATCTGTCAGAAGAAAGTTCAGGAAGCAGACATGATTGCTCCCGGCATCCCGTCATTATCAGAGAGGATGCGGGAGGATGCCACTTTAATTAATTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGc                                                                             >  2:597487/1‑139 (MQ=255)

                                   ttGATCTGTCAGAAGAAAGTTCAGGAAGCAGACATGATTGCTCCCGGCATCCCGTCATTATCAGAGAGGATGCGGGAGGATGCCACTTTAATTAATTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACg                                                                        >  1:1048358/1‑139 (MQ=255)

                                                          ggAAGCAGACATGATTGCTCCCGGCATCCCGTCATTATCAGAGAGGATGCGGGAGGATGCCACTTTAATTAATTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCcaatcaat                                                 <  1:404528/139‑1 (MQ=255)

                                                                           cTCCCGGCATCCCGTCATTATCAGAGAGGATGCGGGAGGATGCCACTTTAATTAATTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGACGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                >  1:698404/1‑139 (MQ=255)

                                                                                ggCATCCCGTCATTATCAGAGAGGATGCGGGAGGATGCCACTTTAATTAATTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGtcat                           >  1:109472/1‑139 (MQ=255)

                                                                                        gTCATTATCAGAGAGGATGCGGGAGGATGCCACTTTAATTAATTAGTTATTAACATTAAAAAg                                                                                               <  1:741008/63‑1 (MQ=255)

                                                                                        gTCATTATCAGAGAGGATGCGGGAGGATGCCACTTTAATTAATTAGTTATTAACATTAAAAAg                                                                                               >  2:741008/1‑63 (MQ=255)

                                                                                                       gATGCGGGAGGATGCCACTTTAATTAATTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTggg                                                             >  1:186627/1‑82 (MQ=255)

                                                                                                       gATGCGGGAGGATGCCACTTTAATTAATTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTggg                                                             <  2:186627/82‑1 (MQ=255)

                                                                                                       gATGCGGGAGGATGCCACTTTAATTAATTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATgcg    >  1:926872/1‑139 (MQ=255)

                                                                                                        aTGCGGGAGGATGCCACTTTAATTAATTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATgcgc   >  2:841706/1‑139 (MQ=255)

                                                                                                         tGCGGGAGGATGCCACTTTAATTAATTAGTTATTAACATTAAAAAg                                                                                               <  1:531542/46‑1 (MQ=255)

                                                                                                         tGCGGGAGGATGCCACTTTAATTAATTAGTTATTAACATTAAAAAg                                                                                               >  2:531542/1‑46 (MQ=255)

                                                                                                         tGCGGGAGGATGCCACTTTAATTAATTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGcc                                                        >  2:957322/1‑85 (MQ=255)

                                                                                                         tGCGGGAGGATGCCACTTTAATTAATTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGcc                                                        <  1:957322/85‑1 (MQ=255)

                                                                                                         tGCGGGAGGATGCCACTTTAATTAATTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGcc  <  2:698404/139‑1 (MQ=255)

                                                                                                         tGCGGGAGGATGCCACTTTAATTAATTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGcc  >  1:762918/1‑139 (MQ=255)

                                                                                                         tGCGGGAGGATGCCACTTTAATTAATTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGcc  >  1:215086/1‑139 (MQ=255)

                                                                                                         tGCGGGAGGATGCCACTTTAATTAATTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGAGcc  >  2:1037850/1‑139 (MQ=255)

                                                                                                                   tGCCACTTTAATTAATTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGtt                                     >  2:1107019/1‑94 (MQ=255)

                                                                                                                   tGCCACTTTAATTAATTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGtt                                     <  1:1107019/94‑1 (MQ=255)

                                                                                                                    gCCACTTTAATTAATTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCt             >  1:801215/1‑117 (MQ=255)

                                                                                                                    gCCACTTTAATTAATTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCt             <  2:801215/117‑1 (MQ=255)

GCGTACAGCACGCCGCTAATCATTACTGGCATCCATTGATCTGTCAGAAGAAAGTTCAGGAAGCAGACATGATTGCTCCCGGCATCCCGTCATTATCAGAGAGGATGCGGGAGGATGCCACTTTAATTAACTAGTTATTAACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGCC  >  NC_000913/4433034‑4433277

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A