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	467,413	G→T	49.3%	P751P (CCG→CCT)	sucA →	2‑oxoglutarate decarboxylase, thiamin‑requiring

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	467,413	0	G	T	49.3%	11.3 / 78.5	73	P751P (CCG→CCT)	sucA	2‑oxoglutarate decarboxylase, thiamin‑requiring
Reads supporting (aligned to +/- strand): ref base G (8/29); new base T (16/20); total (24/49)
Fisher's exact test for biased strand distribution p-value = 4.82e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CTCCTCCGCGCGTCTGGAACGTTATCTGCAACTTTGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGCTGCGCGGGATGCGTCG  >  minE/467347‑467472

ctcctcCGCGCGTCTGGAACGTTATCTGCAACTTTGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTc                                                           <  1:2780230/69‑1 (MQ=255)

ctcctcCGCGCGTCTGGAACGTTATCTGCAACTTTGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTc                                                           <  1:2762540/69‑1 (MQ=255)

ctcctcCGCGCGTCTGGAACGTTATCTGCAACTTTGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTc                                                           <  1:342633/69‑1 (MQ=255)

ctcctcCGCGCGTCTGGAACGTTATCTGCAACTTTGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTc                                                           <  1:69727/69‑1 (MQ=255)

ctcctcCGCGCGTCTGGAACGTTATCTGCAACTTTGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTc                                                           <  1:1835276/69‑1 (MQ=255)

ctcctcCGCGCGTCTGGAACGTTATCTGCAACTTTGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTc                                                           <  1:144043/69‑1 (MQ=255)

ctcctcCGCGCGTCTGGAACGTTATCTGCAACTTTGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTc                                                           <  1:913913/69‑1 (MQ=255)

ctcctcCGCGCGTCTGGAACGTTATCTGCAACTTTGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTc                                                           <  1:825322/69‑1 (MQ=255)

ctcctcCGCGCGTCTGGAACGTTATCTGCAACTTTGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTc                                                           <  1:1797549/69‑1 (MQ=255)

ctcctcCGCGCGTCTGGAACGTTATCTGCAACTTTGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTc                                                           <  1:1720052/69‑1 (MQ=255)

  cctccGCGCGTCTGGAACGTTATCTGCAACTTTGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTCTa                                                         >  1:2682858/1‑69 (MQ=255)

               ggAACGTTATCTGCAACTTTGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTCTACCCCGGCACAgg                                             >  1:1124056/1‑68 (MQ=255)

                  aCGTTATCTGCAACTTTGTGCTTAGCAAAACATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGttt                                          <  1:1573714/68‑1 (MQ=255)

                  aCGTTATCTGCAACTTTGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGttt                                          <  1:2452352/68‑1 (MQ=255)

                  aCGTTATCTGCAACTTTGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGttt                                          <  1:2092798/68‑1 (MQ=255)

                  aCGTTATCTGCAACTTTGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGttt                                          <  1:606839/68‑1 (MQ=255)

                  aCGTTATCTGCAACTTTGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGttt                                          <  1:2396183/68‑1 (MQ=255)

                  aCGTTATCTGCAACTTTGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGttt                                          <  1:2615630/68‑1 (MQ=255)

                             aaCTTTGCGCTGAGCAAAACATGCAGGTTTGCGTACCTTCt                                                          >  1:1371379/1‑41 (MQ=38)

                             aaCTTTGCGCTGAGCAAAACATGCAGGTTTGCGTACCTTCTACCCCGGca                                                 >  1:1557774/1‑50 (MQ=255)

                             aaCTTTGCGCTGAGCAAAACATGCAGGTTTGCGTACCTTCTACCCCGGCACAGGTTTACCACAtgctgc                              >  1:944237/1‑69 (MQ=255)

                             aaCTTTGCGCTGAGCAAAACATGCAGGTTTGCGTACCTTCTACCCCGGCACAGGTTTACCACAtgctgc                              >  1:542368/1‑69 (MQ=255)

                             aaCTTTGCGCTGAGCAAAACATGCAGGTTTGCGTACCTTCTACCCCGGCACAGGTTTACCACAtgctgc                              >  1:381503/1‑69 (MQ=255)

                             aaCTTTGCGCTGAGCAAAACATGCAGGTTTGCGTACCTTCTACCCCGGCACAGGTTTACCACAtgctgc                              >  1:2208707/1‑69 (MQ=255)

                             aaCTTTGCGCTGAGCAAAACATGCAGGTTTGCGTACCTTCTACCCCGGCACAGGTTTACCACAtgctgc                              >  1:2190531/1‑69 (MQ=255)

                             aaCTTTGCGCTGAGCAAAACATGCAGGTTTGCGTACCTTCTACCCCGGCACAGGTTTACCACAtgctgc                              >  1:2132761/1‑69 (MQ=255)

                             aaCTTTGCGCTGAGCAAAACATGCAGGTTTGCGTACCTTCTACCCCGGCACAGGTTTACCACAtgctgc                              >  1:281042/1‑69 (MQ=255)

                             aaCTTTGCGCTGAGCAAAACATGCAGGTTTGCGTACCTTCTACCCCGGCACAGGTTTACCACAtgctgc                              >  1:1191346/1‑69 (MQ=255)

                             aaCTTTGCGCTGAGCAAAACATGCAGGTTTGCGTACCTTCTACCCCGGCACAGGTTTACCACAtgctgc                              >  1:1296432/1‑69 (MQ=255)

                             aaCTTTGCGCTGAGCAAAACATGCAGGTTTGCGTACCTTCTACCCCGGCACAGGTTTACCACAtgctgc                              >  1:82370/1‑69 (MQ=255)

                             aaCTTTGCGCTGAGCAAAACATGCAGGTTTGCGTACCTTCTACCCCGGCACAGGTTTACCACAtgctgc                              >  1:1849485/1‑69 (MQ=255)

                             aaCTTTGCGCTGAGCAAAACATGCAGGTTTGCGTACCTTCTACCCCGGCACAGGTTTACCACAtgctgc                              >  1:860076/1‑69 (MQ=255)

                             aaCTTTGCGCTGAGCAAAACATGCAGGTTTGCGTACCTTCTACCCCGGCACAGGTTTACCACAtgctgc                              >  1:1404438/1‑69 (MQ=255)

                             aaCTTTGCGCTGAGCAAAACATGCAGGTTTGCGTACCTTCTACCCCGGCACAGGTTTACCACAtgatgc                              >  1:2996520/1‑69 (MQ=255)

                                 ttGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGttt                                          <  1:1502340/53‑1 (MQ=255)

                                 ttGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGttt                                          <  1:923159/53‑1 (MQ=255)

                                 ttGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGttt                                          <  1:2843440/53‑1 (MQ=255)

                                 ttGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGttt                                          <  1:1310602/53‑1 (MQ=255)

                                 ttGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGttt                                          <  1:3357685/53‑1 (MQ=255)

                                 ttGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGttt                                          <  1:2534878/53‑1 (MQ=255)

                                 ttGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGttt                                          <  1:3031221/53‑1 (MQ=255)

                                 ttGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGttt                                          <  1:2206317/53‑1 (MQ=255)

                                 ttGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGttt                                          <  1:2174866/53‑1 (MQ=255)

                                 ttGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGttt                                          <  1:21450/53‑1 (MQ=255)

                                        gAGCAAAACATGCAGGTTTGCGTACCTTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGgcg                   <  1:1325109/69‑1 (MQ=255)

                                        gAGCAAAACATGCAGGTTTGCGTACCTTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGgcg                   <  1:3261021/69‑1 (MQ=255)

                                        gAGCAAAACATGCAGGTTTGCGTACCTTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGgcg                   <  1:1960649/69‑1 (MQ=255)

                                            aaaaCATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGttt                                          <  1:3341679/42‑1 (MQ=255)

                                             aaaCATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGttt                                          <  1:241196/41‑1 (MQ=255)

                                                  tGCAGGTTTGCGTACCGTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGCTGCGCGGGa         <  1:2007309/69‑1 (MQ=255)

                                                        tttGCGTACCTTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGTTGCGCGGGATGcgtc   <  1:1098447/69‑1 (MQ=255)

                                                        tttGCGTACCTTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGTTGCGCGGGATGcgtc   <  1:3364312/69‑1 (MQ=255)

                                                        tttGCGTACCTTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGTTGCGCGGGATGcgtc   <  1:3368240/69‑1 (MQ=255)

                                                        tttGCGTACCTTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGTTGCGCGGGATGcgtc   <  1:895601/69‑1 (MQ=255)

                                                        tttGCGTACCTTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGTTGCGCGGGATGcgtc   <  1:2994439/69‑1 (MQ=255)

                                                        tttGCGTACCTTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGTTGCGCGGGATGcgtc   <  1:1044961/69‑1 (MQ=255)

                                                        tttGCGTACCTTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGTTGCGCGGGATGcgtc   <  1:1270005/69‑1 (MQ=255)

                                                        tttGCGTACCTTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGTTGCGCGGGATGcgtc   <  1:1451415/69‑1 (MQ=255)

                                                        tttGCGTACCTTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGTTGCGCGGGATGcgtc   <  1:1630346/69‑1 (MQ=255)

                                                        tttGCGTACCTTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGTTGCGCGGGATGcgtc   <  1:1905786/69‑1 (MQ=255)

                                                        tttGCGTACCTTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGTTGCGCGGGATGcgtc   <  1:2279083/69‑1 (MQ=255)

                                                        tttGCGTACCTTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGTTGCGCGGGATGcgtc   <  1:2511353/69‑1 (MQ=255)

                                                        tttGCGTACCTTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGTTGCGCGGGATGcgtc   <  1:2599914/69‑1 (MQ=255)

                                                        tttGCGTACCTTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGTTGCGCGGGATGcgtc   <  1:3288783/69‑1 (MQ=255)

                                                        tttGCGTACCTTCTACCCCGGCACAGGTTTACCACATCCTGCGTCGTCAGGCGTTGCGCGGGATGcgtc   <  1:1449506/69‑1 (MQ=255)

                                                        tttGCGTACCGTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGCTGCGCGGGATGcgtc   >  1:521502/1‑69 (MQ=255)

                                                        tttGCGTACCGTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGCTGCGCGGGATGcgtc   >  1:1823615/1‑69 (MQ=255)

                                                        tttGCGTACCGTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGCTGCGCGGGATGcgtc   >  1:3362786/1‑69 (MQ=255)

                                                        tttGCGTACCGTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGCTGCGCGGGATGcgt    >  1:1915958/1‑68 (MQ=255)

                                                         ttGCGTACCTTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGTTGCGCGGGATGcgtc   <  1:264877/68‑1 (MQ=255)

                                                         ttGCGTACCTTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGTTGCGCGGGATGcgtc   <  1:268792/68‑1 (MQ=255)

                                                         ttGCGTACCGTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGCTGCGCGGGATGcgtcg  >  1:949974/1‑69 (MQ=255)

                                                         atGCGTACCGTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGCTGCGCGGGATGcgtcg  >  1:281254/2‑69 (MQ=255)

CTCCTCCGCGCGTCTGGAACGTTATCTGCAACTTTGTGCTGAGCAAAACATGCAGGTTTGCGTACCGTCTACCCCGGCACAGGTTTACCACATGCTGCGTCGTCAGGCGCTGCGCGGGATGCGTCG  >  minE/467347‑467472

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A