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
A7 F50 I2 R1	209	44.2	1360995	98.7%	1343302	150.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,269,424	T→C	W191R (TGG→CGG)	lpxT →	lipid A 1‑diphosphate synthase; undecaprenyl pyrophosphate:lipid A 1‑phosphate phosphotransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,269,424	0	T	C	97.6%	140.9 / ‑6.8	42	W191R (TGG→CGG)	lpxT	lipid A 1‑diphosphate synthase; undecaprenyl pyrophosphate:lipid A 1‑phosphate phosphotransferase
Reads supporting (aligned to +/- strand): ref base T (1/0); new base C (28/13); total (29/13)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GATAGCTTTCCCGGCGATCACGGCATGATGCTGCTTATTTTTTCGGCATTCATGTGGCGTTATTTCGGCAAAGTTGCAGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACTGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGGAAAAAACAAACATTTCCAAAAC  >  NC_000913/2269283‑2269561

gaTAGCTTTCCCGGCGATCACGGCATGATGCTGCTTATTTTTTCGGCATTCATGTGGCGTTATTTCGGCAAAGTTGCAGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTg                                                                                                                                  <  1:111497/151‑1 (MQ=255)

   aGCTTTCCCGGCGATCACGGCATGATGCTGCTTATTTTTTCGGCATTCATGTGGCGTTATTTCGGCAAAGTTGCAGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGAc                                                                                                                                >  1:453181/1‑150 (MQ=255)

                aTCACGGCATGATGCTTCTTATTTTTTCGGCATTCATGTGGCGTTATTTCGGCAAAGTTGCAGGCCTTATCGCACTTATTATTTTTGTGGATTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTAGGtt                                                                                                                   >  1:505645/1‑150 (MQ=255)

                  cACGGCATGATGCTGCTTATTTTTTCGGCATTCATGTGGCGTTATTTCGGCAAAGTTGCAGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCg                                                                                                                 <  2:31257/150‑1 (MQ=255)

                   aCGGCATGATGCTGCTTATTTTTTCGGCATTCATGTGGCGTTATTTCGGCAAAGTTGCAGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGa                                                                                                                >  1:173399/1‑150 (MQ=255)

                    cGGCATGATGCTGCTTATTTTTTCGGCATTCATGTGGCGTTATTTCGGCAAAGTTGCAGGCCTTATCGCCCTTATCATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATg                                                                                                              >  1:185440/1‑151 (MQ=255)

                         tgatgCTGCTTATTTTTTCGGCATTCATGTGGCGTTATTTCGGCAAAGTTGCAGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGt                                                                                                         >  2:15375/1‑151 (MQ=255)

                          gatgCTGCTTATTTTTTCGGCATTCATGTGGCGTTATTTCGGCAAAGTTGCAGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTg                                                                                                        >  1:587756/1‑151 (MQ=255)

                                        tttCGGCATTCATGTGGCGTTATTTCGGCAAAGTTGCAGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGttt                                                                                          >  2:474199/1‑151 (MQ=255)

                                         ttCGGCATTCATGTGGCGTTATTTCGGCAAAGTTGCAGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTg                                                                                         >  2:260469/1‑151 (MQ=255)

                                             gCATTCATGTGGCGTTATTTCGGCAAAGTTGCAGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATAGATCGGTTTGCCCt                                                                                     <  1:185073/151‑1 (MQ=255)

                                              cATTCATGTGGCGTTATTTCGGCAAAGTTGCAGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTg                                                                                    >  2:275942/1‑151 (MQ=255)

                                                 tCATGTGGCGTTATTTCGGCAAAGTTGCAGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGgt                                                                                 >  1:479929/1‑151 (MQ=255)

                                                     gtgGCGTTATTTCGGCAAAGTTGCAGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTg                                                                             <  2:344835/151‑1 (MQ=255)

                                                        gCGTTATTTCGGCAAAGTTGCAGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTg                                                                          >  1:562011/1‑151 (MQ=255)

                                                               ttCGGCAAAGTTGCAGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCa                                                                    <  2:653367/150‑1 (MQ=255)

                                                               ttCGGCAAAGTTGCAGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCa                                                                    <  1:114919/150‑1 (MQ=255)

                                                                    cAAAGTTGCAGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGt                                                              >  1:428279/1‑151 (MQ=255)

                                                                         ttGCAGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCg                                                         >  1:513073/1‑151 (MQ=255)

                                                                             aGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTa                                                     <  2:357754/151‑1 (MQ=255)

                                                                                ccTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATc                                                  >  2:58262/1‑151 (MQ=255)

                                                                                   aaTCGCCCTTATTAGTTTTGTGGGTTTTGGATGTGGCAGAGTAATGATTGGGGGACGCTGGTTTACTGACATCATTGTAGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGCGTTGCTGACGCCATTAAGTGATCGATTACTCAcc                                               >  2:129470/2‑151 (MQ=255)

                                                                                      cGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCttt                                            >  1:352746/1‑151 (MQ=255)

                                                                                       gCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCtttt                                           >  2:559370/1‑151 (MQ=255)

                                                                                         ccTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCtttttt                                         <  2:292008/151‑1 (MQ=255)

                                                                                            tattatTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTg                                        <  1:312721/149‑1 (MQ=255)

                                                                                             attattTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACa                                     <  2:365752/151‑1 (MQ=255)

                                                                                             attattTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGAGATCGATTAATCACCTTTTTTGAc                                      >  1:281198/1‑150 (MQ=255)

                                                                                               tattTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACaa                                    >  2:472203/1‑150 (MQ=255)

                                                                                                attTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAAt                                  <  1:25406/151‑1 (MQ=255)

                                                                                                attTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAAt                                  >  2:504203/1‑151 (MQ=255)

                                                                                                     tgtgGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACt                              >  2:193170/1‑150 (MQ=255)

                                                                                                      gtgGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTa                             <  2:334712/150‑1 (MQ=255)

                                                                                                       tgGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTAcc                           >  1:308623/1‑151 (MQ=255)

                                                                                                          tttttGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGG‑TTGCCCTGGGTGGTGCTGACGCCATTAAGGGATCGATTAATCAACTTTTTTGACAAATCACTACCAgg                        >  1:256981/1‑150 (MQ=255)

                                                                                                             ttGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGGaa                      <  2:525240/150‑1 (MQ=255)

                                                                                                             ttGCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGGaa                      >  1:408686/1‑150 (MQ=255)

                                                                                                               gCATTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGGaaaa                    >  2:193362/1‑150 (MQ=255)

                                                                                                                 aTTTCCCAGAGTAATGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGGAAAaaac                 >  2:325109/1‑151 (MQ=255)

                                                                                                                               tGATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGGAAAAAACAAACATTTCCaaa    >  1:390630/1‑150 (MQ=255)

                                                                                                                                gATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGGAAAAAACAAACATTTCCAAAAc  >  2:463090/1‑151 (MQ=255)

                                                                                                                                gATTGGCGCACACCGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGGAAAAAACAAACATTTCCAAAAc  >  1:672407/1‑151 (MQ=255)

GATAGCTTTCCCGGCGATCACGGCATGATGCTGCTTATTTTTTCGGCATTCATGTGGCGTTATTTCGGCAAAGTTGCAGGCCTTATCGCCCTTATTATTTTTGTGGTTTTTGCATTTCCCAGAGTAATGATTGGCGCACACTGGTTTACTGACATCATTGTCGGTTCGATGACCGTGATATTGATCGGTTTGCCCTGGGTGTTGCTGACGCCATTAAGTGATCGATTAATCACCTTTTTTGACAAATCACTACCAGGAAAAAACAAACATTTCCAAAAC  >  NC_000913/2269283‑2269561

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A