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	571,477	T→C	35.5%	K27R (AAA→AGA)	ybjE ←	predicted transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	571,477	0	T	C	35.5%	57.7 / 53.6	90	K27R (AAA→AGA)	ybjE	predicted transporter
Reads supporting (aligned to +/- strand): ref base T (35/23); new base C (17/15); total (52/38)
Fisher's exact test for biased strand distribution p-value = 5.14e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ACCCATAAAAAAGAGAATAAGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAGAATGATTAACA  >  minE/571422‑571543

aCCCATAAAAAAGAGAATAAGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCtt                                                        <  1:262683/68‑1 (MQ=255)

aCCCATAAAAAAGAGAATAAGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCtt                                                        <  1:2271470/68‑1 (MQ=255)

   cATAAAAAAGAGAATAAGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCttgttg                                                    >  1:765305/1‑69 (MQ=255)

   cATAAAAAAGAGAATAAGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCttgttg                                                    >  1:192473/1‑69 (MQ=255)

   cATAAAAAAGAGAATAAGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCttgttg                                                    >  1:1197802/1‑69 (MQ=255)

       aaaaaGAGAATAAGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACg                                                              >  1:3213368/1‑55 (MQ=255)

       aaaaaGAGAATAAGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGa                                                >  1:2413375/1‑69 (MQ=255)

       aaaaaGAGAATAAGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGa                                                >  1:1959839/1‑69 (MQ=255)

       aaaaaGAGAATAAGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGa                                                >  1:1948337/1‑69 (MQ=255)

       aaaaaGAGAATAAGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGa                                                >  1:1201667/1‑69 (MQ=255)

       aaaaaGAGAATAAGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGa                                                >  1:780154/1‑69 (MQ=255)

       aaaaaGAGAATAAGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGa                                                >  1:833322/1‑69 (MQ=255)

       aaaaaGAGAATAAGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGa                                                >  1:251363/1‑69 (MQ=255)

       aaaaaGAGAATAAGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGa                                                >  1:2803601/1‑69 (MQ=255)

                  aaGGTAAACCATCCAGCTTAATAGCTGATTAATAACtttt                                                                  >  1:2016336/1‑40 (MQ=255)

                  aaGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGa                                      >  1:3049123/1‑68 (MQ=255)

                  aaGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGa                                      >  1:3001226/1‑68 (MQ=255)

                  aaGGTAAACCATACAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGa                                      >  1:3133401/1‑68 (MQ=255)

                   aGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAg                                     >  1:2163737/1‑68 (MQ=255)

                   aGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAg                                     >  1:2241009/1‑68 (MQ=255)

                   aGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAg                                     >  1:2427198/1‑68 (MQ=255)

                   aGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAg                                     >  1:3333647/1‑68 (MQ=255)

                   aGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAg                                     >  1:1705916/1‑68 (MQ=255)

                   aGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAg                                     >  1:1875555/1‑68 (MQ=255)

                   aGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAg                                     >  1:336545/1‑68 (MQ=255)

                   aGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAg                                     >  1:1907182/1‑68 (MQ=255)

                     gTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTa                                  >  1:150395/1‑69 (MQ=255)

                     gTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTa                                  >  1:1151650/1‑69 (MQ=255)

                     gTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTa                                  >  1:2666156/1‑69 (MQ=255)

                      tAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTaa                                 >  1:482639/1‑69 (MQ=255)

                      tAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTaa                                 >  1:2566483/1‑69 (MQ=255)

                      tAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTaa                                 >  1:1495842/1‑69 (MQ=255)

                         aCCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCgg                                           <  1:1675426/56‑1 (MQ=255)

                          ccATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAAccc                              >  1:304462/1‑68 (MQ=255)

                          ccATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAAccc                              >  1:2568203/1‑68 (MQ=255)

                          ccATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAAccc                              >  1:16289/1‑68 (MQ=255)

                          ccATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAAccc                              >  1:1246572/1‑68 (MQ=255)

                          ccATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAAccc                              >  1:278054/1‑68 (MQ=255)

                                   ttAATAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGAAGCGGAATg                                       <  1:2733309/50‑1 (MQ=255)

                                   ttAATAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGAAGCGGAATg                                       <  1:2470185/50‑1 (MQ=255)

                                   ttAATAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGAAGCGGAATg                                       <  1:2654738/50‑1 (MQ=255)

                                   ttAATAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGAAGCGGAATg                                       <  1:2466331/50‑1 (MQ=255)

                                   ttAATAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGAAGCGGAATg                                       <  1:2860802/50‑1 (MQ=255)

                                   ttAATAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGAAGCGGAATg                                       <  1:2808787/50‑1 (MQ=255)

                                   ttAATAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGAAGCGGAATg                                       <  1:2179065/50‑1 (MQ=255)

                                   ttAATAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGAAGCGGAATg                                       <  1:1045206/50‑1 (MQ=255)

                                   ttAATAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGAAGCGGAATg                                       <  1:1299334/50‑1 (MQ=255)

                                   ttAATAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGAAGCGGAATg                                       <  1:139038/50‑1 (MQ=255)

                                   ttAATAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGAAGCGGAATg                                       <  1:1543131/50‑1 (MQ=255)

                                   ttAATAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGAAGCGGAATg                                       <  1:554885/50‑1 (MQ=255)

                                   ttAATAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGAAGCGGAATg                                       <  1:470865/50‑1 (MQ=255)

                                   ttAATAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGAAGCGGAATg                                       <  1:330081/50‑1 (MQ=255)

                                    tAATAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGAAGCGGAATg                                       <  1:2264307/49‑1 (MQ=38)

                                     aaTAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGa                                                >  1:584592/1‑39 (MQ=37)

                                     aaTAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGa                                                >  1:434888/1‑39 (MQ=37)

                                     aaTAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGa                                                >  1:41419/1‑39 (MQ=37)

                                     aaTAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGa                                                >  1:654384/1‑39 (MQ=37)

                                     aaTAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGa                                                >  1:907635/1‑39 (MQ=37)

                                     aaTAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGa                                                >  1:981645/1‑39 (MQ=37)

                                     aaTAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGa                                                >  1:10238/1‑39 (MQ=37)

                                     aaTAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGa                                                >  1:991767/1‑39 (MQ=37)

                                     aaTAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGa                                                >  1:2674485/1‑39 (MQ=37)

                                     aaTAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGa                                                >  1:1037530/1‑39 (MQ=37)

                                     aaTAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGa                                                >  1:1075767/1‑39 (MQ=37)

                                     aaTAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGa                                                >  1:118974/1‑39 (MQ=37)

                                     aaTAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGa                                                >  1:1637579/1‑39 (MQ=37)

                                     aaTAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGa                                                >  1:1639822/1‑39 (MQ=37)

                                     aaTAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGa                                                >  1:1945876/1‑39 (MQ=37)

                                     aaTAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGa                                                >  1:2658674/1‑39 (MQ=37)

                                     aaTAGCTGATTAATAACTCTTAATGCAGCTTTTTGGCGa                                                >  1:261663/1‑39 (MQ=37)

                                           tGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAg             <  1:827633/68‑1 (MQ=255)

                                           tGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAg             <  1:1365397/68‑1 (MQ=255)

                                           tGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAg             <  1:694936/68‑1 (MQ=255)

                                           tGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAg             <  1:2923059/68‑1 (MQ=255)

                                           tGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAg             <  1:501417/68‑1 (MQ=255)

                                           tGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAg             <  1:1177407/68‑1 (MQ=255)

                                           tGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAg             <  1:1890759/68‑1 (MQ=255)

                                           tGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAg             <  1:1919288/68‑1 (MQ=255)

                                                aataaCTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCGACAATCAGGGGAACCAGAATGa        >  1:2666003/1‑68 (MQ=255)

                                                  taaCTTTTAACGCAGCTTGTTGGCGAAGCGTAATGAGGTAACCCACAATCAGGGGAACCAGAATGAtt      <  1:1384364/68‑1 (MQ=255)

                                                  taaCTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAGAATGAtt      <  1:1863633/68‑1 (MQ=255)

                                                  taaCTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAGAATGAtt      <  1:1683770/68‑1 (MQ=255)

                                                  taaCTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAGAATGAtt      <  1:3244374/68‑1 (MQ=255)

                                                  taaCTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAGAATGAtt      <  1:1066977/68‑1 (MQ=255)

                                                  taaCTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAGAATGAtt      <  1:2522146/68‑1 (MQ=255)

                                                   aaCTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAGAATGAtt      <  1:205280/67‑1 (MQ=255)

                                                   aaCTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAGAATGAtt      <  1:747250/67‑1 (MQ=255)

                                                   aaCTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAGAATGAtt      <  1:1690334/67‑1 (MQ=255)

                                                   aaCTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAGAATGAtt      <  1:2528458/67‑1 (MQ=255)

                                                   aaCTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAGAATGAtt      <  1:2030062/67‑1 (MQ=255)

                                                    aCTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAGAATGAtt      <  1:1865230/66‑1 (MQ=255)

                                                      ttttAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAGAATGATTAACa  <  1:2726675/68‑1 (MQ=255)

ACCCATAAAAAAGAGAATAAGGTAAACCATCCAGCTTAATAGCTGATTAATAACTTTTAACGCAGCTTGTTGGCGAAGCGGAATGAGGTAACCCACAATCAGGGGAACCAGAATGATTAACA  >  minE/571422‑571543

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A