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
A2 F1 I0 R1	4577	57.4	3436498	77.7%	2670158	63.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	1,473,718	T→C	69.7%	R434R (CGT→CGC)	nrdA →	ribonucleoside diphosphate reductase 1, alpha subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,473,718	0	T	C	69.7%	89.9 / 41.8	92	R434R (CGT→CGC)	nrdA	ribonucleoside diphosphate reductase 1, alpha subunit
Reads supporting (aligned to +/- strand): ref base T (23/5); new base C (27/37); total (50/42)
Fisher's exact test for biased strand distribution p-value = 5.29e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.57e-01

Only 100 of 106 total aligned reads displayed.

TTCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCAAACCGCTGAACGACGTCAACGACGAGAACG  >  minE/1473657‑1473785

ttCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTa                                                              <  1:1438146/69‑1 (MQ=255)

ttCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTa                                                              <  1:1959736/69‑1 (MQ=255)

ttCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTa                                                              <  1:1642087/69‑1 (MQ=255)

ttCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTa                                                              <  1:1429088/69‑1 (MQ=255)

ttCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTa                                                              <  1:876346/69‑1 (MQ=255)

ttCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTa                                                              <  1:1184912/69‑1 (MQ=255)

ttCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTa                                                              <  1:93876/69‑1 (MQ=255)

ttCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTa                                                              <  1:2449418/69‑1 (MQ=255)

 tCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTa                                                              <  1:2685359/68‑1 (MQ=255)

 tCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTa                                                              <  1:2135828/68‑1 (MQ=255)

  cAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTa                                                              <  1:2933679/67‑1 (MQ=255)

                  gCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAg                                            <  1:2762100/69‑1 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCt                                                          >  1:1238697/1‑52 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:2833635/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:1873567/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:3077950/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:2973983/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:41393/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:1606730/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:461996/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:973555/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:1418449/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:2323751/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGACCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:2338850/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGACCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:2844473/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGACCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:2875972/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGACCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:2038712/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGACCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:410445/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGACCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:2452120/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGACCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:3194555/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGACCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:3307285/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGACCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:1677497/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGACCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:1486226/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGACCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:791723/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGACCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:1087807/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGACCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:1012934/1‑69 (MQ=255)

                     aTACCCATAGCCCGTTTGATCCGAACATCGCGCCAGTGCGCCAGTCTAACCTGTGCCTGGAAATCGccc                                         >  1:271458/1‑69 (MQ=255)

                        cccATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAg                                            >  1:2236545/1‑63 (MQ=255)

                        cccATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAg                                            >  1:1154765/1‑63 (MQ=255)

                        cccATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAGCCCTg                                       >  1:660970/1‑68 (MQ=255)

                        cccATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAGCCCTg                                       >  1:2523756/1‑68 (MQ=255)

                        cccATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGTAAGTCTAACCTGTGCCTGGAGATAg                                            >  1:754008/1‑63 (MQ=255)

                              gCCCGTTTGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCTGgaga                                               >  1:1808300/1‑54 (MQ=255)

                              gCCCGTTTGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCa                                >  1:1072198/1‑69 (MQ=255)

                              gCCCGTTTGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCa                                >  1:42970/1‑69 (MQ=255)

                              gCCCGTTTGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCa                                >  1:1142061/1‑69 (MQ=255)

                              gCCCGTTTGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCa                                >  1:1836035/1‑69 (MQ=255)

                              gCCCGTTTGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCa                                >  1:1965440/1‑69 (MQ=255)

                              gCCCGTTTGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCa                                >  1:2329619/1‑69 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:2560429/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:64844/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:553515/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:1585653/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:717353/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:386730/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:128448/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:3383744/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:175372/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:3302096/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:323422/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:182347/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:1257023/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:1990679/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:2235213/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:879332/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:2622692/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:2624518/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:2644476/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:2671960/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:231842/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:2692080/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:812917/43‑1 (MQ=255)

                                    ttGATCCGGCCATCGCGCCAGTGCGCCAGTCTAACCTGTGCCt                                                    <  1:2076837/43‑1 (MQ=255)

                                     tGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCAAACCg                           >  1:1383738/1‑67 (MQ=255)

                                     tGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCAAACCg                           >  1:2047072/1‑67 (MQ=255)

                                     tGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCAAACCGc                          >  1:772962/1‑68 (MQ=255)

                                     tGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCAAACCGc                          >  1:776985/1‑68 (MQ=255)

                                                  gcgcCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCAAACCGCTGAACGACGTCAac            <  1:831127/69‑1 (MQ=255)

                                                  gcgcCAGTGCGTCAGTCTAACCTGTGCCTGAAGATAGCCCTGCCGACCAAACCGCTGAACGACGTCAac            >  1:3201581/1‑69 (MQ=255)

                                                    gcCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCAAACCGCTGAACGACGTc               <  1:122807/64‑1 (MQ=255)

                                                    gcCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCAAACCGCTGAACGACGTc               <  1:3172684/64‑1 (MQ=255)

                                                     ccAGTGCGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCAAACCGCTGAACGACGTc               <  1:362761/63‑1 (MQ=255)

                                                          gcgcCAGTCTAACCTGTGCCTGGAAATCGCCCTGCCGACCAAACCGCTGAACGACGTCAACGACGAGaa    >  1:839176/1‑69 (MQ=255)

                                                          gcgcCAGTCTAACCTGTGCCTGGAAATCGCCCTGCCGACCAAACCGCTGAACGACGTCAACGACGAGaa    >  1:744055/1‑69 (MQ=255)

                                                          gcgcCAGTCTAACCTGTGCCTGGAAATCGCCCTGCCGACCAAACCGCTGAACGACGTCAACGACGAGaa    >  1:2520225/1‑69 (MQ=255)

                                                          gcgcCAGTCTAACCTGTGCCTGGAAATCGCCCTGCCGACCAAACCGCTGAACGACGTCAACGACGAGaa    >  1:1458026/1‑69 (MQ=255)

                                                          gcgcCAGTCTAACCTGTGCCTGGAAATCGCCCTGCCGACCAAACCGCTGAACGACGTCAACGACGAGaa    >  1:1636871/1‑69 (MQ=255)

                                                          gcgcCAGTCTAACCTGTGCCTGGAAATCGCCCTGCCGACCAAACCGCTGAACGACGTCAACGACGAGaa    >  1:357538/1‑69 (MQ=255)

                                                          gcgcCAGTCTAACCTGTGCCTGGAAATCGCCCTGCCGACCAAACCGCTGAACGACGTCAACGACGAGaa    >  1:3270310/1‑69 (MQ=255)

                                                          gcgcCAGTCTAACCTGTGCCTGGAAATCGCCCTGCCGACCAAACCGCTGAACGACGTCAACGACGAGaa    >  1:3187965/1‑69 (MQ=255)

                                                          gcgcCAGTCTAACCTGTGCCTGGAAATCGCCCTGCCGACCAAACCGCTGAACGACGTCAACGACGAGaa    >  1:2061523/1‑69 (MQ=255)

                                                          gcgcCAGTCTAACCTGTGCCTGGAAATCGCCCTGCCGACCAAACCGCTGAACGACGTCAACGACGAGaa    >  1:2175193/1‑69 (MQ=255)

                                                          gcgcCAGTCTAACCTGTGCCTGGAAATCGCCCTGCCGACCAAACCGCTGAACGACGTCAACGACGAGaa    >  1:253516/1‑69 (MQ=255)

                                                          gcgcCAGTCTAACCTGTGCCTGGAAATCGCCCTGCCGACCAAACCGCTGAACGACGTCAACGACGAGaa    >  1:2475901/1‑69 (MQ=255)

                                                          gcgcCAGTCTAACCTGTGCCTGGAAATCCCCCTGCCGACCAAACCGCTGAACGACGTCAacga          >  1:1744900/1‑63 (MQ=255)

                                                           cGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCAAACGGCTGAACGACGTCAACGACGAGaa    >  1:843672/1‑68 (MQ=255)

                                                           cGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCAAACCGCTGAACGACGTCAACGACGAGAAc   >  1:2962988/1‑69 (MQ=255)

                                                           cGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCAAACCGCTGAACGACGTCAACGACGAGAAc   >  1:2905622/1‑69 (MQ=255)

                                                           cGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCAAACCGCTGAACGACGTCAACGACGAGAAc   >  1:2785085/1‑69 (MQ=255)

                                                           cGTCAGTCTAAC‑‑GTGCCTGGAGATAGCCCTGCCGACCAAACCGCTGAACGACGTCAACGACGAGAACg  >  1:1126750/1‑68 (MQ=255)

TTCAGAACGTTGACCACTGCAATACCCATAGCCCGTTTGATCCGGCCATCGCGCCAGTGCGTCAGTCTAACCTGTGCCTGGAGATAGCCCTGCCGACCAAACCGCTGAACGACGTCAACGACGAGAACG  >  minE/1473657‑1473785

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 21 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A