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 1,042,145 C→G 64.0% T26T (ACC→ACG)  gst → glutathionine S‑transferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,042,1450CG64.0% 62.8 / 58.8 75T26T (ACC→ACG) gstglutathionine S‑transferase
Reads supporting (aligned to +/- strand):  ref base C (4/23);  new base G (31/17);  total (35/40)
Fisher's exact test for biased strand distribution p-value = 3.34e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TCTACAAACCGGGTGCCTGCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTAACCCTA  >  minE/1042078‑1042212
                                                                   |                                                                   
tCTACAAACCGGGTGCCTGCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTAcc                                                                     <  1:618759/68‑1 (MQ=255)
    cAAACCGGGTGCCTGCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACCCTc                                                                  >  1:1942731/1‑67 (MQ=255)
    cAAACCGGGTGCCTGCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACCCTc                                                                  >  1:1001528/1‑67 (MQ=255)
      aaCCGGGTGCCTGCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACCCTCGTc                                                               <  1:2077872/68‑1 (MQ=255)
      aaCCGGGTGCCTGCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACCCTCGTc                                                               <  1:3356055/68‑1 (MQ=255)
      aaCCGGGTGCCTGCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACCCTCGTc                                                               <  1:2626448/68‑1 (MQ=255)
                  gCTCTCTCGCTTCCCATATCACCCTGCGTGAGCGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTa                                                   >  1:1626645/1‑68 (MQ=255)
                  gCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAgtgt                                                          >  1:1090662/1‑61 (MQ=255)
                  gCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTa                                                   >  1:3232183/1‑68 (MQ=255)
                  gCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTa                                                   >  1:1944847/1‑68 (MQ=255)
                  gCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTa                                                   >  1:2079462/1‑68 (MQ=255)
                  gCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTa                                                   >  1:2396642/1‑68 (MQ=255)
                  gCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTa                                                   >  1:2608405/1‑68 (MQ=255)
                  gCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTa                                                   >  1:281697/1‑68 (MQ=255)
                  gCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTa                                                   >  1:2312146/1‑68 (MQ=255)
                  gCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTa                                                   >  1:46417/1‑68 (MQ=255)
                  gCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTa                                                   >  1:541824/1‑68 (MQ=255)
                  gCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTa                                                   >  1:685652/1‑68 (MQ=255)
                  gCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTa                                                   >  1:744160/1‑68 (MQ=255)
                  gCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTa                                                   >  1:745460/1‑68 (MQ=255)
                  gCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTa                                                   >  1:943441/1‑68 (MQ=255)
                  gCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTa                                                   >  1:1307022/1‑68 (MQ=255)
                  gCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTa                                                   >  1:1381126/1‑68 (MQ=255)
                  gCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTa                                                   >  1:1037866/1‑68 (MQ=255)
                  gCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTa                                                   >  1:1169739/1‑68 (MQ=255)
                                   atCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGaa                                 <  1:2967488/69‑1 (MQ=255)
                                   atCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGaa                                 <  1:2249843/69‑1 (MQ=255)
                                   atCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGaa                                 <  1:2184626/69‑1 (MQ=255)
                                   atCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGaa                                 <  1:1356649/69‑1 (MQ=255)
                                   atCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGaa                                 <  1:1978658/69‑1 (MQ=255)
                                   atCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGaa                                 <  1:3230842/69‑1 (MQ=255)
                                   atCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGaa                                 <  1:1774536/69‑1 (MQ=255)
                                   atCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGaa                                 <  1:3291675/69‑1 (MQ=255)
                                   atCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGaa                                 <  1:1174206/69‑1 (MQ=255)
                                   atCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGaa                                 <  1:1216874/69‑1 (MQ=255)
                                   atCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGaa                                 <  1:1317526/69‑1 (MQ=255)
                                    tCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGaa                                 <  1:157106/68‑1 (MQ=255)
                                    tCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGaa                                 <  1:2698535/68‑1 (MQ=255)
                                    tCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGaa                                 <  1:2129016/68‑1 (MQ=255)
                                    tCACCCTGCGTGAGAGCGGAAAGGATTTTACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGaa                                 <  1:3411396/68‑1 (MQ=255)
                                    tCACCCTGCGTGAGAGCGGAAAGGATTTTACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGaaa                                >  1:130533/1‑69 (MQ=255)
                                              tGAGAGCGTAAAGGATTTTACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACg                       <  1:2614311/68‑1 (MQ=255)
                                              tGAGAGCGGAAAGGATTTTACCCTCGTCAGTGTGGTTTTAATGAAAAAACGTCTCGAAAACGGTGACg                       <  1:664904/68‑1 (MQ=255)
                                              tGAGAGCGGAAAGGATTTTACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACg                       <  1:2790434/68‑1 (MQ=255)
                                              tGAGAGCGGAAAGGATTTTACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACg                       <  1:2894585/68‑1 (MQ=255)
                                              tGAGAGCGGAAAGGATTTTACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACg                       <  1:1609699/68‑1 (MQ=255)
                                              tGAGAGCGGAAAGGATTTTACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACg                       <  1:2400184/68‑1 (MQ=255)
                                              tGAGAGCGGAAAGGATTTTACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACg                       <  1:2347846/68‑1 (MQ=255)
                                              tGAGAGCGGAAAGGATTTTACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACg                       <  1:1671231/68‑1 (MQ=255)
                                              tGAGAGCGGAAAGGATTTTACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACg                       <  1:2231517/68‑1 (MQ=255)
                                              tGAGAGCGGAAAGGATTTTACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACg                       <  1:212678/68‑1 (MQ=255)
                                              tGAGAGCGGAAAGGATTTTACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACg                       <  1:1744453/68‑1 (MQ=255)
                                              tGAGAGCGGAAAGGATTTTACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACg                       <  1:143317/68‑1 (MQ=255)
                                              tGAGAGCGGAAAGGATTTTACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACg                       <  1:1797620/68‑1 (MQ=255)
                                              tGAGAGCGGAAAGGATTTTACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACg                       <  1:2002716/68‑1 (MQ=255)
                                                agagCGGAAAGGATTTTACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGa                         >  1:1484849/1‑64 (MQ=255)
                                                          ggATTTTACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGaa                                 <  1:634822/46‑1 (MQ=255)
                                                             ttttACGCTCGTCAGTGTGGATTTAATGAAAAAACGtctc                                    >  1:432178/1‑40 (MQ=255)
                                                             ttttACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTaa       >  1:848286/1‑69 (MQ=255)
                                                             ttttACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTaa       >  1:133997/1‑69 (MQ=255)
                                                             ttttACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTaa       >  1:606798/1‑69 (MQ=255)
                                                             ttttACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTaa       >  1:430840/1‑69 (MQ=255)
                                                             ttttACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTaa       >  1:683555/1‑69 (MQ=255)
                                                             ttttACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTaa       >  1:1710155/1‑69 (MQ=255)
                                                             ttttACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTaa       >  1:1758707/1‑69 (MQ=255)
                                                             ttttACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTaa       >  1:2041137/1‑69 (MQ=255)
                                                             ttttACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTaa       >  1:1277463/1‑69 (MQ=255)
                                                             ttttACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTaa       >  1:2978241/1‑69 (MQ=255)
                                                             ttttACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTaa       >  1:2949520/1‑69 (MQ=255)
                                                             ttttACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTaa       <  1:1227219/69‑1 (MQ=255)
                                                             ttttACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTaa       <  1:2897298/69‑1 (MQ=255)
                                                             ttttACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTaa       <  1:3262950/69‑1 (MQ=255)
                                                             ttttACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTaa       <  1:408442/69‑1 (MQ=255)
                                                             ttttACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTaa       <  1:2013913/69‑1 (MQ=255)
                                                             ttttACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTaa       <  1:2311071/69‑1 (MQ=255)
                                                              tttACGCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGaa                                 <  1:1985973/42‑1 (MQ=255)
                                                                  cccTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTaa       <  1:679772/64‑1 (MQ=255)
                                                                   ccTCGTCAGTGTGGATTTAATTAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTAACCCTa  <  1:1005190/68‑1 (MQ=255)
                                                                   ccTCGTCAGTGTGGATTTAATGAAAAAACTTCTCGAAAACGGTGACGATTACTTTGCCGTTAACCCTa  <  1:914300/68‑1 (MQ=255)
                                                                   ccTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTAACCCTa  <  1:1197609/68‑1 (MQ=255)
                                                                   ccTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTAACCCTa  <  1:543127/68‑1 (MQ=255)
                                                                   ccTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTAACCCTa  <  1:1199097/68‑1 (MQ=255)
                                                                   ccTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTAACCCTa  <  1:3434361/68‑1 (MQ=255)
                                                                   ccTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTAACCCTa  <  1:3391100/68‑1 (MQ=255)
                                                                   ccTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTAACCCTa  <  1:326667/68‑1 (MQ=255)
                                                                   ccTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTAACCCTa  <  1:2835778/68‑1 (MQ=255)
                                                                   ccTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTAACCCTa  <  1:2735904/68‑1 (MQ=255)
                                                                   ccTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTAACCCTa  <  1:158732/68‑1 (MQ=255)
                                                                   |                                                                   
TCTACAAACCGGGTGCCTGCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTACCCTCGTCAGTGTGGATTTAATGAAAAAACGTCTCGAAAACGGTGACGATTACTTTGCCGTTAACCCTA  >  minE/1042078‑1042212

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