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	771	44.8	2153074	94.1%	2026042	109.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,024,887	C→T	S179S (AGC→AGT)	xanQ →	xanthine permease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,024,887	0	C	T	93.0%	109.6 / 1.0	43	S179S (AGC→AGT)	xanQ	xanthine permease
Reads supporting (aligned to +/- strand): ref base C (1/2); new base T (20/20); total (21/22)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.05e-01

CATTTATCTTGCCCTATTTACGTCGGGTTATTACGCCTACCGTCAGCGGTATTGTGGTACTGATGATCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGCGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGATCGGCTTTAACTGCTGTCGCAGTCCGTTGCTACGCATGGGAGGGATCGCCATTGGGCTATGTGTCGG  >  NC_000913/3024757‑3025012

cATTTATCTTGCCCTATTTACGTCGGGTTATTACGCCTACCGTCAGCGGTATTGTGGTACTGATGATCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGtt                                                                                                                       <  2:694595/139‑1 (MQ=255)

          gCCCTATTTACGTCGGGTTATTACGCCTACCGTCAGCGGTATTGTGGTACTGATGATCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTAc                                                                                                             >  2:66404/1‑139 (MQ=255)

           cccTATTTACGTCGGGTTATTACGCCTACCGTCAGCGGTATTGTGGTACTGATGATCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACg                                                                                                            >  2:559438/1‑139 (MQ=255)

             cTATTTACGTCGGGTTATTACGCCTACCGTCAGCGGTATTGTGGTACTGATGATCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGCGGTACGTTCGGCAATTACGaa                                                                                                          <  2:356696/139‑1 (MQ=255)

                  tACGTCGGGTTATTACGCCTACCGTCAGCGGTATTGTGGTACTGATGATCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACAtct                                                                                                     <  1:72690/139‑1 (MQ=255)

                       cGGGTTATTACGCCTACCGTCAGCGGTATTGTGGTACTGATGATCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCg                                                                                                <  2:71120/139‑1 (MQ=255)

                        gggTTATTACGCCTACCGTCAGCGGTATTGTGGTACTGATGATCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGt                                                                                               <  1:559438/139‑1 (MQ=255)

                                    cTACCGTCAGCGGTATTGTGGTACTGATGATCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGt                                                                                   <  1:802388/139‑1 (MQ=255)

                                      aCCGTCAGCGGTATTGTGGTACTGATGATCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGttt                                                                                 >  1:419327/1‑139 (MQ=255)

                                            aGCGGTATTGTGGTACTGATGATCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGCGGTACGTTCGGCAATTACGAACATCTCGGCg                                                                                                <  1:431144/118‑1 (MQ=255)

                                            aGCGGTATTGTGGTACTGATGATCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGCGGTACGTTCGGCAATTACGAACATCTCGGCg                                                                                                >  2:431144/1‑118 (MQ=255)

                                            aGCGGTATGGTGGTACTGATGATCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATtg                                                                           >  1:626987/1‑139 (MQ=255)

                                                           cTGATGATCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACAtct                                                                                                     >  2:98703/1‑98 (MQ=255)

                                                           cTGATGATCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACAtct                                                                                                     <  1:98703/98‑1 (MQ=255)

                                                           cTGATGATCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTgg                                                                                            <  1:44949/107‑1 (MQ=255)

                                                           cTGATGATCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTgg                                                                                            >  2:44949/1‑107 (MQ=255)

                                                              atgatCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGATCGGCTTTAAct                                                         >  1:550138/1‑139 (MQ=255)

                                                               tgatCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGATCGGCTTTAActg                                                        <  1:66404/139‑1 (MQ=255)

                                                                gatCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCgg                                                                                                                    >  1:997753/1‑78 (MQ=255)

                                                                gatCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCgg                                                                                                                    <  2:997753/78‑1 (MQ=255)

                                                                gatCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGttt                                                                                         >  1:1053257/1‑105 (MQ=255)

                                                                gatCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGATCGGCTTTAActgc                                                       >  1:1008239/1‑139 (MQ=255)

                                                                gatCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGATCGGCTTTAActgc                                                       >  1:368856/1‑139 (MQ=255)

                                                                gatCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGATCGGCTTTAActgc                                                       >  2:376319/1‑139 (MQ=255)

                                                                gatCGGCTTAAGCCTGATTAAAGTCCGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGttt                                                                                         <  2:1053257/105‑1 (MQ=255)

                                                                  tCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGATCGGCTTTAActgctg                                                     >  1:146160/1‑139 (MQ=255)

                                                                     gCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGATCGGCTTTAACTGCTGTCg                                                  <  1:376319/139‑1 (MQ=255)

                                                                            ccTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGATCGGCTTTAACTGCTGTCGCAGTCCg                                           <  2:620974/139‑1 (MQ=255)

                                                                               gATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGATCGGCTTTAACGGCTGTCGCAGTCCGTTg                                        <  2:419327/139‑1 (MQ=255)

                                                                                aTTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTa                                                                                                                           >  1:463741/1‑55 (MQ=255)

                                                                                aTTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTa                                                                                                                           <  2:463741/55‑1 (MQ=255)

                                                                                aTTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGttt                                                                                 <  2:461468/97‑1 (MQ=255)

                                                                                aTTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGttt                                                                                 >  1:461468/1‑97 (MQ=255)

                                                                                aTTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGATc                                                                   >  1:95566/1‑111 (MQ=255)

                                                                                aTTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGATc                                                                   <  2:95566/111‑1 (MQ=255)

                                                                                  tAAAGTCGGCATTATCGACTGTGGTGGAGGACTTGAAGCCAAAAGCAGTGGTACGTTCGGAAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGATCGGCTTTAACTGCTGTCGCAGTCTGTTGCTa                                     <  2:626987/139‑1 (MQ=255)

                                                                                     aGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGATCGGCTTTAACTGCTGTCg                                                  <  2:586928/123‑1 (MQ=255)

                                                                                     aGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGATCGGCTTTAACTGCTGTCg                                                  >  1:586928/1‑123 (MQ=255)

                                                                                          gCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGa                                                                     <  1:846077/99‑1 (MQ=255)

                                                                                          gCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGa                                                                     >  2:846077/1‑99 (MQ=255)

                                                                                          gCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGATCGGCTTTAACTGCTGTCGCAGTCCGTTGCTACGCATggg                             >  2:904987/1‑139 (MQ=255)

                                                                                                tCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGATCGGCTTTAACTGCTGTCGCAGTCCGTTGCTACGCATGGGAGGGAt                       <  2:368856/139‑1 (MQ=255)

                                                                                                              ggaTTTGCAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTAATTGGTTTTACTTGTGGTGATCGGCTTTAACTGCTGTCGCAGTCCGTTGCTACGCATGGGAGGGATCGCCATTGGGCTAt         >  1:942770/1‑139 (MQ=255)

                                                                                                                     cAGCCAAAAGCAGTGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGATCGGCTTTAACTGCTGTCGCAGTCCGTTGCTACGCATGGGAGGGATCGCCATTGGGCTATGTGTCgg  <  1:904987/139‑1 (MQ=255)

CATTTATCTTGCCCTATTTACGTCGGGTTATTACGCCTACCGTCAGCGGTATTGTGGTACTGATGATCGGCTTAAGCCTGATTAAAGTCGGCATTATCGATTTTGGTGGAGGATTTGCAGCCAAAAGCAGCGGTACGTTCGGCAATTACGAACATCTCGGCGTTGGTTTATTGGTTTTAATTGTGGTGATCGGCTTTAACTGCTGTCGCAGTCCGTTGCTACGCATGGGAGGGATCGCCATTGGGCTATGTGTCGG  >  NC_000913/3024757‑3025012

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A