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 1,733,352 C→A 50.9% L111L (CTG→CTT)  acpS ← holo‑[acyl‑carrier‑protein] synthase 1

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,733,3520CA50.9% 4.2 / 134.0 104L111L (CTG→CTT) acpSholo‑[acyl‑carrier‑protein] synthase 1
Reads supporting (aligned to +/- strand):  ref base C (4/47);  new base A (15/38);  total (19/85)
Fisher's exact test for biased strand distribution p-value = 1.01e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.54e-01

Only 100 of 104 total aligned reads displayed.

AACGGTATTATTTTTAACTTTCAATAATTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGTTTTAATGCCTCGCCCCATA  >  minE/1733291‑1733413
                                                             |                                                             
aaCGGTATTATTTTTAACTTTCAATAATTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTa                                                        <  1:3392354/69‑1 (MQ=255)
aaCGGTATTATTTTTAACTTTCAATAATTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTa                                                        <  1:1914485/69‑1 (MQ=255)
aaCGGTATTATTTTTAACTTTCAATAATTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTa                                                        <  1:2739574/69‑1 (MQ=255)
aaCGGTATTATTTTTAACTTTCAATAATTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTa                                                        <  1:1720220/69‑1 (MQ=255)
aaCGGTATTATTTTTAACTTTCAATAATTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTa                                                        <  1:2503015/69‑1 (MQ=255)
aaCGGTATTATTTTTAACTTTCAATAATTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTa                                                        <  1:3077747/69‑1 (MQ=255)
aaCGGTATTATTTTTAACTTTCAATAATTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTa                                                        <  1:2193212/69‑1 (MQ=255)
aaCGGTATTATTTTTAACTTTCAATAATTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTa                                                        <  1:183141/69‑1 (MQ=255)
aaCGGTATTATTTTTAACTTTCAATAATTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTa                                                        <  1:581150/69‑1 (MQ=255)
aaCGGTATTATTTTTAACTTTCAATAATTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTa                                                        <  1:186581/69‑1 (MQ=255)
aaCGGTATTATTTTTAACTTTCAATAATTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTa                                                        <  1:955122/69‑1 (MQ=255)
aaCGGTATTATTTTTAACTTTCAATAATTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTa                                                        <  1:2502330/69‑1 (MQ=255)
                  tttCAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtttac                                           >  1:1959882/1‑62 (MQ=255)
                  tttCAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtttac                                           >  1:1770605/1‑62 (MQ=255)
                  tttCAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtttac                                           >  1:2409116/1‑62 (MQ=255)
                  tttCAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtttac                                           >  1:2564580/1‑62 (MQ=255)
                  tttCAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtttac                                           >  1:2414742/1‑62 (MQ=255)
                  tttCAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtttac                                           >  1:2343344/1‑62 (MQ=255)
                  tttCAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtttac                                           >  1:1935375/1‑62 (MQ=255)
                  tttCAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtttac                                           >  1:2803347/1‑62 (MQ=255)
                  tttCAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtttac                                           >  1:299627/1‑62 (MQ=255)
                  tttCAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtttac                                           >  1:3000148/1‑62 (MQ=255)
                  tttCAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtttac                                           >  1:519981/1‑62 (MQ=255)
                  tttCAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtttac                                           >  1:652451/1‑62 (MQ=255)
                  tttCAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtttac                                           >  1:2034138/1‑62 (MQ=255)
                  tttCAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAttta                                            >  1:227768/1‑62 (MQ=255)
                  tttCAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAttt                                             >  1:2123585/1‑62 (MQ=255)
                     cAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGtt                                                         <  1:2589171/47‑1 (MQ=255)
                     cAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGtt                                                         <  1:2527485/47‑1 (MQ=255)
                     cAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGtt                                                         <  1:992170/47‑1 (MQ=255)
                     cAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGtt                                                         <  1:2599704/47‑1 (MQ=255)
                     cAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGtt                                                         <  1:2637476/47‑1 (MQ=255)
                     cAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGtt                                                         <  1:2765217/47‑1 (MQ=255)
                     cAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGtt                                                         <  1:2947157/47‑1 (MQ=255)
                     cAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGtt                                                         <  1:432670/47‑1 (MQ=255)
                     cAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGtt                                                         <  1:955704/47‑1 (MQ=255)
                     cAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGtt                                                         <  1:104413/47‑1 (MQ=255)
                     cAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGtt                                                         <  1:1516356/47‑1 (MQ=255)
                     cAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGtt                                                         <  1:127581/47‑1 (MQ=255)
                     cAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGtt                                                         <  1:1405053/47‑1 (MQ=255)
                     cAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGtt                                                         <  1:1919381/47‑1 (MQ=255)
                     cAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGtt                                                         <  1:1914264/47‑1 (MQ=255)
                     cAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGtt                                                         <  1:1423180/47‑1 (MQ=255)
                     cAATAATTACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGtt                                                         <  1:1429188/47‑1 (MQ=255)
                          atTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCATCttt                              <  1:1334074/69‑1 (MQ=255)
                          atTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCttt                              >  1:767341/1‑69 (MQ=255)
                          atTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCttt                              <  1:1556746/69‑1 (MQ=255)
                          atTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCttt                              <  1:2960117/69‑1 (MQ=255)
                          atTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCttt                              >  1:1775263/1‑69 (MQ=255)
                          atTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCttt                              <  1:3001328/69‑1 (MQ=255)
                          atTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCttt                              >  1:1974119/1‑69 (MQ=255)
                          atTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCttt                              >  1:3362929/1‑69 (MQ=255)
                            tACCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGtt                                                         <  1:1295937/40‑1 (MQ=255)
                             aCCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtt                                              <  1:1512523/50‑1 (MQ=255)
                             aCCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtt                                              <  1:505501/50‑1 (MQ=255)
                             aCCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtt                                              <  1:2852366/50‑1 (MQ=255)
                             aCCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtt                                              <  1:61447/50‑1 (MQ=255)
                             aCCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtt                                              <  1:483272/50‑1 (MQ=255)
                             aCCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtt                                              <  1:135822/50‑1 (MQ=255)
                             aCCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtt                                              <  1:3112681/50‑1 (MQ=255)
                             aCCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtt                                              <  1:2801132/50‑1 (MQ=255)
                             aCCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtt                                              <  1:278762/50‑1 (MQ=255)
                             aCCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtt                                              <  1:512300/50‑1 (MQ=255)
                             aCCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtt                                              <  1:2666711/50‑1 (MQ=255)
                             aCCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtt                                              <  1:1561228/50‑1 (MQ=255)
                             aCCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtt                                              <  1:2443157/50‑1 (MQ=255)
                             aCCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtt                                              <  1:797786/50‑1 (MQ=255)
                             aCCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtt                                              <  1:2228361/50‑1 (MQ=255)
                             aCCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtt                                              <  1:2190403/50‑1 (MQ=255)
                             aCCGTGGCACAAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtt                                              <  1:2168846/50‑1 (MQ=255)
                                    cacaAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtt                                              <  1:1682455/43‑1 (MQ=255)
                                      caAGCATAGTGGCGCTCATCGGCAAGCGTTACATGCATAtt                                              <  1:69694/41‑1 (MQ=255)
                                      caAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCGCAGCTTTTCCGCCAGtttt                  <  1:2184818/69‑1 (MQ=255)
                                      caAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:3086536/69‑1 (MQ=255)
                                      caAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:891180/69‑1 (MQ=255)
                                      caAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:78544/69‑1 (MQ=255)
                                      caAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:1882134/69‑1 (MQ=255)
                                      caAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:722924/69‑1 (MQ=255)
                                      caAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:915246/69‑1 (MQ=255)
                                      caAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:948485/69‑1 (MQ=255)
                                      caAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:65053/69‑1 (MQ=255)
                                      caAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:2012848/69‑1 (MQ=255)
                                      caAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:130094/69‑1 (MQ=255)
                                      caAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:1151644/69‑1 (MQ=255)
                                      caAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:987817/69‑1 (MQ=255)
                                      caAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:3358938/69‑1 (MQ=255)
                                      caAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:289454/69‑1 (MQ=255)
                                      caAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:1503313/69‑1 (MQ=255)
                                      caAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTACGCCAGtttt                  <  1:2938797/69‑1 (MQ=255)
                                      caAGCATAGTGCCGCTCATCAGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:1909314/69‑1 (MQ=255)
                                       aaGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:602728/68‑1 (MQ=255)
                                       aaGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:360456/68‑1 (MQ=255)
                                              gTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:1126589/61‑1 (MQ=255)
                                              gTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:834499/61‑1 (MQ=255)
                                              gTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:1734824/61‑1 (MQ=255)
                                              gTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:1598005/61‑1 (MQ=255)
                                              gTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:1521286/61‑1 (MQ=255)
                                              gTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:1307764/61‑1 (MQ=255)
                                              gTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGtttt                  <  1:2817578/61‑1 (MQ=255)
                                                      cATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGTTTTAATGCCTCGCCCCAta  <  1:2768595/69‑1 (MQ=255)
                                                             |                                                             
AACGGTATTATTTTTAACTTTCAATAATTACCGTGGCACAAGCATAGTGCCGCTCATCTGCCAGCGTTACATGCATATTTGCAACGCCCAGCTTTTCCGCCAGTTTTAATGCCTCGCCCCATA  >  minE/1733291‑1733413

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