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
A8 F1 I1 R1	82	28.6	1225488	97.4%	1193625	116.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,538,491	C→T	G92D (GGC→GAC)	nanM ←	N‑acetylneuraminic acid mutarotase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,538,491	0	C	T	95.0%	120.9 / ‑0.9	40	G92D (GGC→GAC)	nanM	N‑acetylneuraminic acid mutarotase
Reads supporting (aligned to +/- strand): ref base C (1/1); new base T (18/20); total (19/21)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.67e-01

GTGTACAAAAGTCACATGGCCCGCCATGCCCATCGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGCCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTATCCAGCTTGTACCATGCCGTACCTGCG  >  NC_000913/4538358‑4538625

gtgtACAAAAGTCACATGGCCCGCCATGCCCATCGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCa                                                                                                                                   <  2:498597/139‑1 (MQ=255)

gtgtACAAAAGTCACATGGCCCGCCATGCCCATCGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCa                                                                                                                                   <  2:249853/139‑1 (MQ=255)

  gtACAAAAGTCACATGGCCCGCCATGCCCATCGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCaaa                                                                                                                                 <  2:85456/139‑1 (MQ=255)

  gtACAAAAGTCACATGGCCCGCCATGCCCATCGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCaaa                                                                                                                                 <  2:421021/139‑1 (MQ=255)

        aaGTCACATGGCCCGCCATGCCCATCGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATa                                                                                                                           <  2:106257/139‑1 (MQ=255)

           tCACATGGCCCGCCATGCCCATCGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAg                                                                                                                        >  1:275855/1‑139 (MQ=255)

                  gCCCGCCATGCCCATCGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCa                                                                                                                 <  1:156981/139‑1 (MQ=255)

                              cATCGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCa                                                                                                     <  2:566264/139‑1 (MQ=255)

                                 cGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCagag                                                                                                  <  2:275855/139‑1 (MQ=255)

                                   gcgcGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGt                                                                                                <  1:433389/139‑1 (MQ=255)

                                      cgTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGc                                                                                             >  1:462694/1‑139 (MQ=255)

                                      cgTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGc                                                                                             >  2:466035/1‑139 (MQ=255)

                                       gTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCt                                                                                            >  2:307080/1‑139 (MQ=255)

                                                   tttAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGt                                                                                <  1:218899/139‑1 (MQ=255)

                                                               aTTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAAt                                                                    <  1:342629/139‑1 (MQ=255)

                                                                      ttGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCt                                                                                            >  2:560308/1‑108 (MQ=255)

                                                                      ttGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCt                                                                                            <  1:560308/108‑1 (MQ=255)

                                                                        ggggTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATACAGCTAAc                                                           >  2:159054/1‑139 (MQ=255)

                                                                                         cGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATc                                          >  2:521991/1‑139 (MQ=255)

                                                                                         cGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATc                                          >  1:14212/1‑139 (MQ=255)

                                                                                          gTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCt                                         <  1:466035/139‑1 (MQ=255)

                                                                                            cATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCttt                                       <  1:521991/139‑1 (MQ=255)

                                                                                                    aCCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGt                                                                                >  2:468758/1‑90 (MQ=255)

                                                                                                    aCCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGt                                                                                <  1:468758/90‑1 (MQ=255)

                                                                                                    aCCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCtgtg                               >  2:327951/1‑139 (MQ=255)

                                                                                                      cTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTa                             >  1:127303/1‑139 (MQ=255)

                                                                                                       ttaGTCAAGCCCTTGTTGTTTTTGCCAATGTCGCCAAACACATACAGTTTGCCATCAATAAATGCAGAGGTTGCTTTATCTCTTGGTCCGAAAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTTTGTAt                            <  1:307080/137‑1 (MQ=255)

                                                                                                        gAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCa                                                                                                                                   >  2:416309/1‑35 (MQ=255)

                                                                                                        gAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCa                                                                                                                                   <  1:416309/35‑1 (MQ=255)

                                                                                                         aGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTATcc                          >  2:295964/1‑139 (MQ=255)

                                                                                                           tCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTATCCAg                        >  1:464052/1‑139 (MQ=255)

                                                                                                             aaGCCCTCGCTGTTTTCGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCa                                                                                                     >  2:369153/1‑60 (MQ=255)

                                                                                                             aaGCCCTCGCTGTTTTCGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCa                                                                                                     <  1:369153/60‑1 (MQ=255)

                                                                                                               gCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTATCCAGCTTg                    >  1:105323/1‑139 (MQ=255)

                                                                                                                cccTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTATCCAGCTTGt                   >  2:165878/1‑139 (MQ=255)

                                                                                                                  cTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTATCCAGCTTGTAc                 <  2:190119/139‑1 (MQ=255)

                                                                                                                    cGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTATCCAGCTTGTACCa               >  1:174/1‑139 (MQ=255)

                                                                                                                           tttGCCAATGCCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTgg                                     >  2:449638/1‑110 (MQ=255)

                                                                                                                           tttGCCAATGCCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTgg                                     <  1:449638/110‑1 (MQ=255)

                                                                                                                                 aaTGTCGTCAAACACATTCTTATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGCATGCGGCTAGCACTGTCCATTTTTTATCTTTAGCCTGTGTATCCAGCCTGTACCATGCTGCACCTgcg  <  1:533977/139‑1 (MQ=255)

GTGTACAAAAGTCACATGGCCCGCCATGCCCATCGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGCCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTATCCAGCTTGTACCATGCCGTACCTGCG  >  NC_000913/4538358‑4538625

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A