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	299,920	C→T	51.7%	G272G (GGC→GGT)	mdlB →	fused predicted multidrug transporter subunits and ATP binding components of ABC superfamily

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	299,920	0	C	T	51.7%	‑0.3 / 138.7	149	G272G (GGC→GGT)	mdlB	fused predicted multidrug transporter subunits and ATP binding components of ABC superfamily
Reads supporting (aligned to +/- strand): ref base C (30/42); new base T (27/50); total (57/92)
Fisher's exact test for biased strand distribution p-value = 5.00e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.37e-01

Only 100 of 155 total aligned reads displayed.

TTTCTGCTGCGTCCGCTGCTGAGTCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTGTATGCGTTTATCAGCTATCTTGGGCGACTTA  >  minE/299852‑299987

tttCTGCTGCGTCCGCTGCTGAGTCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGc                                                                     <  1:941165/69‑1 (MQ=255)

tttCTGCTGCGTCCGCTGCTGAGTCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGc                                                                     <  1:1963986/69‑1 (MQ=255)

tttCTGCTGCGTCCGCTGCTGAGTCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGc                                                                     <  1:2161760/69‑1 (MQ=255)

tttCTGCTGCGTCCGCTGCTGAGTCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGc                                                                     <  1:491835/69‑1 (MQ=255)

 ttCTGCTGCGTCCGCTGCTGAGTCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGc                                                                     <  1:2421322/68‑1 (MQ=255)

    tgctgcGTCCGCTGCTGAGTCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTtc                                                                  <  1:1045911/68‑1 (MQ=255)

           tCCGCTGCTGAGTCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAg                                                          >  1:893132/1‑69 (MQ=255)

           tCCGCTGCTGAGTCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAg                                                          >  1:620323/1‑69 (MQ=255)

           tCCGCTGCTGAGTCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAg                                                          >  1:1583284/1‑69 (MQ=255)

                 gctgAGTCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCAc                                                    <  1:2546919/69‑1 (MQ=255)

                 gctgAGTCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCAc                                                    <  1:1500144/69‑1 (MQ=255)

                 gctgAGTCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCAc                                                    <  1:3401633/69‑1 (MQ=255)

                 gctgAGTCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCAc                                                    <  1:2669733/69‑1 (MQ=255)

                 gctgAGTCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCAc                                                    <  1:722044/69‑1 (MQ=255)

                 gctgAGTCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCAc                                                    <  1:953047/69‑1 (MQ=255)

                       tCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCACCATTGa                                              <  1:2516698/69‑1 (MQ=255)

                       tCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCACCATTGa                                              <  1:981078/69‑1 (MQ=255)

                       tCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCACCATTGa                                              <  1:3307884/69‑1 (MQ=255)

                        cTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCACCATTGa                                              <  1:3309813/68‑1 (MQ=255)

                             ttCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAg                                            <  1:1487083/65‑1 (MQ=255)

                             ttCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAg                                            <  1:407058/65‑1 (MQ=255)

                             ttCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAg                                            <  1:2146353/65‑1 (MQ=255)

                             ttCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAg                                            <  1:283782/65‑1 (MQ=255)

                             ttCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAg                                            <  1:2174845/65‑1 (MQ=255)

                             ttCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAg                                            <  1:1726761/65‑1 (MQ=255)

                             ttCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAg                                            <  1:2771734/65‑1 (MQ=255)

                             ttCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAg                                            <  1:2305613/65‑1 (MQ=255)

                             ttCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAg                                            <  1:2669136/65‑1 (MQ=255)

                             ttCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAg                                            <  1:228625/65‑1 (MQ=255)

                             ttCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGc                                                             >  1:2305282/1‑48 (MQ=255)

                             ttCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGc                                                             >  1:1833018/1‑48 (MQ=255)

                             ttCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGc                                                             >  1:3153787/1‑48 (MQ=255)

                             ttCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGc                                                             >  1:493502/1‑48 (MQ=255)

                             ttCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGc                                                             >  1:511134/1‑48 (MQ=255)

                             ttCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGc                                                             >  1:519755/1‑48 (MQ=255)

                                     tCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTg                                 <  1:2803189/68‑1 (MQ=255)

                                     tCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTg                                 <  1:2501615/68‑1 (MQ=255)

                                     tCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTg                                 <  1:2249103/68‑1 (MQ=255)

                                     tCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTg                                 <  1:651853/68‑1 (MQ=255)

                                     tCATTCTTTGTGGCATGTTGATGCTGTTTGGCTTCTCCGcc                                                            >  1:133772/1‑41 (MQ=255)

                                          cTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTGTATGCg                           >  1:2546801/1‑69 (MQ=255)

                                          cTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTGTATGCg                           >  1:3134891/1‑69 (MQ=255)

                                          cTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTGTATGCg                           >  1:2525491/1‑69 (MQ=255)

                                          cTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTGTATGCg                           >  1:1476388/1‑69 (MQ=255)

                                          cTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTGTATGCg                           >  1:1314394/1‑69 (MQ=255)

                                          cTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTGTATGCg                           >  1:1330677/1‑69 (MQ=255)

                                          cTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCACCATCGAAGTGGGCGTGCTGTATGCg                           >  1:885830/1‑69 (MQ=255)

                                             tgtgGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCACCATTGAAGTGGGCg                                      >  1:3118213/1‑55 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTTGGCGTGTTg                                 <  1:2710836/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:3186486/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:677320/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:1253067/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:305668/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:3186312/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:1727269/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:1392302/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:329310/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:1552178/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:151435/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:1399998/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:1449379/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:1076399/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:1781872/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:1782553/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:705815/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:2386779/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:962722/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:2020991/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:2072265/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:2079711/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:2087186/53‑1 (MQ=255)

                                                    tgttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:1107808/53‑1 (MQ=255)

                                                     gttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGa                                              >  1:2664021/1‑39 (MQ=255)

                                                     gttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 >  1:1263428/1‑52 (MQ=255)

                                                     gttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTGTATGCGTTCATCAGTTa                >  1:113362/1‑69 (MQ=255)

                                                     gttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTGTATGCGTTCATCAGTTa                >  1:686490/1‑69 (MQ=255)

                                                     gttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTGTATGCGTTCATCAGTTa                >  1:719243/1‑69 (MQ=255)

                                                     gttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTGTATGCGTTCATCAGTTa                >  1:2364986/1‑69 (MQ=255)

                                                     gttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTGTATGCGTTCATCAGTTa                >  1:2650539/1‑69 (MQ=255)

                                                     gttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTGTATGCGTTCATCAGTTa                >  1:2277330/1‑69 (MQ=255)

                                                     gttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTGTATGCGTTCATCAGTTa                >  1:2461122/1‑69 (MQ=255)

                                                     gttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTGTATGCGTTCATCAGTTa                >  1:2628071/1‑69 (MQ=255)

                                                     gttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTGTATGCGTTCATCAGTTa                >  1:363833/1‑69 (MQ=255)

                                                     gttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTGTATGCGTTCATCAGTTa                >  1:1646220/1‑69 (MQ=255)

                                                     gttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTGTATGCGTTCATCAGTTa                >  1:2835637/1‑69 (MQ=255)

                                                     gttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTGTATGCGTTCATCAGTTa                >  1:1604199/1‑69 (MQ=255)

                                                     gttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTGTATGCGTTCATCAGTTa                >  1:3258881/1‑69 (MQ=255)

                                                     gttgATGCTGTTTGGTTTCTCCGCCAGCGGCACAATTGAAGTgg                                         >  1:704423/1‑44 (MQ=38)

                                                     gttgATGCTGTTTGGTTTCTCCGCCAGCGGCAACATTGAAGTGGGCGTGTTGTATGCGTTCATCAGTTa                >  1:118212/1‑69 (MQ=255)

                                                      ttgATGCTGTTTGGTTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGTTg                                 <  1:2648460/51‑1 (MQ=255)

                                                                   gCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTGTATGCGTTTATCAGCTATCTTGGGCGACtt   <  1:1643052/68‑1 (MQ=255)

                                                                   gCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTGTATGCGTTTATCAGCTATCTTGGGCGACtt   <  1:1572628/68‑1 (MQ=255)

                                                                   gCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTGTATGCGTTTATCAGCTATCTTGGGCGACtt   <  1:845832/68‑1 (MQ=255)

                                                                   gCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTGTATGCGTTTATCAGCTATCTTGGGCGACtt   <  1:3290266/68‑1 (MQ=255)

                                                                   gCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTGTATGCGTTTATCAGCTATCTTGGGCGACtt   <  1:1896420/68‑1 (MQ=255)

                                                                   gCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTGTATGCGTTTATCAGCTATCTTGGGCGACtt   <  1:3417329/68‑1 (MQ=255)

                                                                   gCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTGTATGCGTTTATCAGCTATCTTGGGCGACtt   <  1:2144503/68‑1 (MQ=255)

                                                                   gCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTGTATGCGTTTATCAGCTATCTTGGGCGACTTa  >  1:1189131/1‑69 (MQ=255)

                                                                   gCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTGTATGCGTTTATCAGCTATCTTGGGCGACTTa  >  1:972547/1‑69 (MQ=255)

                                                                   gCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTGTATGCGTTTATCAGCTATCTTGGGCGACTTa  >  1:470430/1‑69 (MQ=255)

TTTCTGCTGCGTCCGCTGCTGAGTCTGTTTTCATCGCTCATTCTTTGTGGCTTGTTGATGCTGTTTGGCTTCTCCGCCAGCGGCACCATTGAAGTGGGCGTGCTGTATGCGTTTATCAGCTATCTTGGGCGACTTA  >  minE/299852‑299987

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