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 1,480,660 C→A 32.6% T154T (ACC→ACA)  glpA → sn‑glycerol‑3‑phosphate dehydrogenase (anaerobic), large subunit, FAD/NAD(P)‑binding

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,480,6600CA32.6% 118.9 / 62.6 101T154T (ACC→ACA) glpAsn‑glycerol‑3‑phosphate dehydrogenase (anaerobic), large subunit, FAD/NAD(P)‑binding
Reads supporting (aligned to +/- strand):  ref base C (44/24);  new base A (22/11);  total (66/35)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.45e-01

Only 100 of 101 total aligned reads displayed.

AACCCGGCACTGATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGTTATCCTTACCGCTCATGAAGT  >  minE/1480598‑1480719
                                                              |                                                           
aaCCCGGCACTGATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCgcagca                                                       >  1:1825332/1‑69 (MQ=255)
aaCCCGGCACTGATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCgcagca                                                       >  1:75323/1‑69 (MQ=255)
aaCCCGGCACTGATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCgcagca                                                       >  1:65725/1‑69 (MQ=255)
aaCCCGGCACTGATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCgcagca                                                       >  1:2431246/1‑69 (MQ=255)
aaCCCGGCACTGATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCgcagca                                                       >  1:2436225/1‑69 (MQ=255)
aaCCCGGCACTGATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCgcagca                                                       >  1:2482852/1‑69 (MQ=255)
aaCCCGGCACTGATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCgcagca                                                       >  1:2578178/1‑69 (MQ=255)
aaCCCGGCACTGATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCgcagca                                                       >  1:3121854/1‑69 (MQ=255)
aaCCCGGCACTGATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCgcagca                                                       >  1:2947732/1‑69 (MQ=255)
aaCCCGGCACTGATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCgcagc                                                        >  1:1019872/1‑68 (MQ=255)
aaCCCGGCACTGATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCgcagc                                                        >  1:954468/1‑68 (MQ=255)
aaCCCGGCACTGATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCgcagc                                                        >  1:580432/1‑68 (MQ=255)
   ccGGCACTGATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCaaa                                                     <  1:3107366/68‑1 (MQ=255)
   ccGGCACTGATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCaaa                                                     <  1:2384144/68‑1 (MQ=255)
   ccGGCACTGATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCaaa                                                     <  1:402815/68‑1 (MQ=255)
         cTGATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTg                                              >  1:2868227/1‑69 (MQ=255)
           gATTGGCGCGGTGAAAGTTCCGGATGGCAGCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTg                                              >  1:51905/1‑67 (MQ=255)
           gATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTg                                              >  1:97680/1‑67 (MQ=255)
           gATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTg                                              >  1:289075/1‑67 (MQ=255)
           gATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTg                                              >  1:3275452/1‑67 (MQ=255)
           gATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTg                                              >  1:2473452/1‑67 (MQ=255)
           gATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTg                                              >  1:433569/1‑67 (MQ=255)
           gATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTg                                              >  1:85428/1‑67 (MQ=255)
           gATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTg                                              <  1:948087/67‑1 (MQ=255)
           gATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTg                                              <  1:1909391/67‑1 (MQ=255)
           gATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTg                                              <  1:1873063/67‑1 (MQ=255)
           gATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTg                                              >  1:106398/1‑67 (MQ=255)
           gATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTg                                              <  1:1588028/67‑1 (MQ=255)
           gATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTg                                              >  1:1686285/1‑67 (MQ=255)
           gATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTg                                              >  1:1386089/1‑67 (MQ=255)
           gATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTg                                              <  1:1731989/67‑1 (MQ=255)
           gATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTg                                              <  1:1832474/67‑1 (MQ=255)
           gATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTg                                              <  1:1834524/67‑1 (MQ=255)
           gATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTg                                              >  1:1071177/1‑67 (MQ=255)
           gATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGAAGCAAACATGCTg                                              >  1:3299913/1‑67 (MQ=255)
                       gAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCt                                               >  1:86077/1‑54 (MQ=255)
                       gAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAaca                                >  1:3051801/1‑69 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:2160977/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:1513728/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:314940/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:3164112/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:3339882/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:3363346/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:351624/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:284406/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:2784266/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:2681482/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:1441967/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:455587/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:2555983/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:545250/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:633/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:64138/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:1950544/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:1202503/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:767542/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgca                                                          >  1:2183003/1‑39 (MQ=255)
                           gTTCCGGATGGCACCGTTGATCCATTTCGTCTGACAgc                                                           >  1:1973988/1‑38 (MQ=255)
                           gTTCCGGATGGCACCGTTGAGCCATTTCGTCTGACAgca                                                          >  1:805232/1‑39 (MQ=37)
                                 gATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAAGATGCTGGATGCCAAAGAACACGGTGCCGt                       <  1:513442/68‑1 (MQ=255)
                                 gATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGtt                      <  1:1016727/69‑1 (MQ=255)
                                 gATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGt                       <  1:1178138/68‑1 (MQ=255)
                                 gATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGt                       <  1:2953125/68‑1 (MQ=255)
                                 gATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGt                       <  1:561504/68‑1 (MQ=255)
                                 gATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGt                       <  1:1688052/68‑1 (MQ=255)
                                 gATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGt                       <  1:1416238/68‑1 (MQ=255)
                                 gATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGt                       <  1:2502567/68‑1 (MQ=255)
                                 gATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGt                       <  1:2906264/68‑1 (MQ=255)
                                          gTTGATCCATTTCGTCTGACAGCAGCAAACATGCTGGATGCCAAAGAACACGGt                            <  1:3108442/54‑1 (MQ=255)
                                          gTTGATCCATTTCGTCTGACAGCAGCAAACATGCTGGATGCCAAAGAACACGGt                            <  1:1855097/54‑1 (MQ=255)
                                          gTTGATCCATTTCGTCTGACAGCAGCAAACATGCTGGATGCCAAAGAACACGGt                            <  1:851903/54‑1 (MQ=255)
                                          gTTGATCCATTTCGTCTGACAGCAGCAAACATGCTGGATGCCAAAGAACACGGt                            <  1:1480257/54‑1 (MQ=255)
                                          gTTGATCCATTTCGTCTGACAGCAGCAAACATGCTGGATGCCAAAGAACACGGt                            <  1:364825/54‑1 (MQ=255)
                                          gTTGATCCATTTCGTCTGACAGCAGCAAACATGCTGGATGCCAAAGAACACGGt                            <  1:344111/54‑1 (MQ=255)
                                          gTTGATCCATTTCGTCTGACAGCAGCAAACATGCTGGATGCCAAAGAACACGGt                            <  1:3095893/54‑1 (MQ=255)
                                          gTTGATCCATTTCGTCTGACAGCAGCAAACATGCTGGATGCCAAAGAACACGGt                            <  1:3134633/54‑1 (MQ=255)
                                          gTTGATCCATTTCGTCTGACAGCAGCAAACATGCTGGATGCCAAAGAACACGGt                            <  1:1500091/54‑1 (MQ=255)
                                          gTTGATCCATTACGTCTGACAGCAGCAAACATGCTGGATGCCAAAGAACACGGt                            <  1:1193799/54‑1 (MQ=255)
                                           ttGATCCATTTCGTCTGACAGCAGCAAACATGCTGGATGCCAAAGAACACGGt                            <  1:1861494/53‑1 (MQ=255)
                                             gATCCATTTCGTCTGACCGCAGCAAACATGCTTGATGCCAAAGAACACGGTGCCGTTATCCTTACCGCt          >  1:2463633/1‑69 (MQ=255)
                                             gATCCATTTCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGTTATCCTTACCGc           >  1:167985/1‑68 (MQ=255)
                                             gATCCATTTCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGTTATCCTTACCGCt          >  1:3274217/1‑69 (MQ=255)
                                             gATCCATTTCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGTTATCCTTACCGCt          >  1:1885961/1‑69 (MQ=255)
                                             gATCCATTTCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGTTATCCTTACCGCt          >  1:842296/1‑69 (MQ=255)
                                             gATCCATTTCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGTTATCCTTACCGCt          >  1:681913/1‑69 (MQ=255)
                                             gATCCATTTCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGTTATCCTTACCGCt          >  1:2633421/1‑69 (MQ=255)
                                             gATCCATTTCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGTTATCCTTACCGCt          >  1:802196/1‑69 (MQ=255)
                                             gATCCATTTCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGTTATCCTTACAGCt          >  1:1625610/1‑69 (MQ=255)
                                                     tCGTCTGACCGCAGCAAACATGCTGGATGCCAAAg                                    <  1:1647498/35‑1 (MQ=255)
                                                     tCGTCTGACCGCAGCAAACATGCTGGATGCCAAAg                                    <  1:3102497/35‑1 (MQ=255)
                                                     tCGTCTGACCGCAGCAAACATGCTGGATGCCAAAg                                    <  1:221741/35‑1 (MQ=255)
                                                     tCGTCTGACCGCAGCAAACATGCTGGATGCCAAAg                                    <  1:2372049/35‑1 (MQ=255)
                                                     tCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGTTATCCTTACCGCTCATGAAGt  >  1:220068/1‑69 (MQ=255)
                                                     tCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGTTATCCTTACCGCTCATGAAGt  >  1:420838/1‑69 (MQ=255)
                                                     tCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGTTATCCTTACCGCTCATGAAGt  >  1:1771315/1‑69 (MQ=255)
                                                     tCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGTTATCCTTACCGCTCATGAAGt  >  1:1912396/1‑69 (MQ=255)
                                                     tCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGTTATCCTTACCGCTCATGAAGt  >  1:2467129/1‑69 (MQ=255)
                                                     tCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGTTATCCTTACCGCTCATGAAGt  >  1:1619823/1‑69 (MQ=255)
                                                     tCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGTTATCCTTACCGCTCATGAAGt  >  1:2913118/1‑69 (MQ=255)
                                                     tCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGTTATCCTTACCGCTAATGAAGt  >  1:774624/1‑69 (MQ=255)
                                                              |                                                           
AACCCGGCACTGATTGGCGCGGTGAAAGTTCCGGATGGCACCGTTGATCCATTTCGTCTGACCGCAGCAAACATGCTGGATGCCAAAGAACACGGTGCCGTTATCCTTACCGCTCATGAAGT  >  minE/1480598‑1480719

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