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 2,386,995 A→G 33.4% F181F (TTT→TTC)  yigM ← predicted inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,386,9950AG33.4% 148.6 / 110.3 191F181F (TTT→TTC) yigMpredicted inner membrane protein
Reads supporting (aligned to +/- strand):  ref base A (75/52);  new base G (36/28);  total (111/80)
Fisher's exact test for biased strand distribution p-value = 7.57e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.16e-01

Only 100 of 192 total aligned reads displayed.

TGCAGCGTGGTTTGCGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCTGTGGCATCGGGCGAGTTTCCATCAGGC  >  minE/2386930‑2387059
                                                                 |                                                                
tGCAGCGTGGTTTGCGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAAc                                                               >  1:2269489/1‑69 (MQ=255)
tGCAGCGTGGTTTGCGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAAc                                                               >  1:892607/1‑69 (MQ=255)
tGCAGCGTGGTTTGCGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAAc                                                               >  1:2971556/1‑69 (MQ=255)
tGCAGCGTGGTTTGCGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAAc                                                               >  1:1122025/1‑69 (MQ=255)
tGCAGCGTGGTTTGCGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAAc                                                               >  1:562791/1‑69 (MQ=255)
tGCAGCGTGGTTTGCGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAAc                                                               >  1:644411/1‑69 (MQ=255)
tGCAGCGTGGTTTGCGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAAc                                                               >  1:630546/1‑69 (MQ=255)
 gCAGCGTGGTTTGCGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAAcg                                                              >  1:2571431/1‑69 (MQ=255)
 gCAGCGTGGTTTGCGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAAcg                                                              >  1:2487551/1‑69 (MQ=255)
       tGGTTTGCGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCaa                                                        <  1:2210230/69‑1 (MQ=255)
       tGGTTTGCGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCaa                                                        <  1:1769611/69‑1 (MQ=255)
       tGGTTTGCGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCaa                                                        <  1:3226584/69‑1 (MQ=255)
       tGGTTTGCGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCaa                                                        <  1:619505/69‑1 (MQ=255)
       tGGTTTGCGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCaa                                                        <  1:758085/69‑1 (MQ=255)
              cGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGa                                                  <  1:2069421/68‑1 (MQ=255)
              cGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGa                                                  <  1:167255/68‑1 (MQ=255)
              cGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGa                                                  <  1:2791724/68‑1 (MQ=255)
              cGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGa                                                  <  1:223446/68‑1 (MQ=255)
              cGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGa                                                  <  1:3155528/68‑1 (MQ=255)
              cGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGa                                                  <  1:79219/68‑1 (MQ=255)
              cGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGa                                                  <  1:1926877/68‑1 (MQ=255)
                     ttCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCa                                          <  1:324706/69‑1 (MQ=255)
                     ttCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCa                                          <  1:2662163/69‑1 (MQ=255)
                     ttCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCa                                          <  1:2060486/69‑1 (MQ=255)
                     ttCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCa                                          <  1:1607301/69‑1 (MQ=255)
                     ttCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCa                                          <  1:1551728/69‑1 (MQ=255)
                     ttCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCa                                          <  1:855717/69‑1 (MQ=255)
                     ttCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCAc                                             >  1:773315/1‑66 (MQ=255)
                     ttCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACg                                            >  1:2812741/1‑67 (MQ=255)
                     ttCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACg                                            >  1:187847/1‑67 (MQ=255)
                     ttCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACg                                            >  1:2703694/1‑67 (MQ=255)
                     ttCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACg                                            >  1:537022/1‑67 (MQ=255)
                     ttCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACg                                            >  1:2130151/1‑67 (MQ=255)
                     ttCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACg                                            >  1:1555704/1‑67 (MQ=255)
                     ttCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACg                                            >  1:675186/1‑67 (MQ=255)
                     ttCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCa                                          <  1:2432102/69‑1 (MQ=255)
                     ttCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCa                                          <  1:1024314/69‑1 (MQ=255)
                     ttCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCa                                          <  1:2686479/69‑1 (MQ=255)
                     ttCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCa                                          <  1:923776/69‑1 (MQ=255)
                     ttCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCa                                          <  1:2264198/69‑1 (MQ=255)
                           gcATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGc                                     >  1:1722431/1‑68 (MQ=255)
                           gcATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGc                                     >  1:2951874/1‑68 (MQ=255)
                           gcATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGc                                     >  1:162099/1‑68 (MQ=255)
                           gcATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGc                                     >  1:2555130/1‑68 (MQ=255)
                           gcATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGc                                     >  1:3354898/1‑68 (MQ=255)
                           gcATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGc                                     >  1:796910/1‑68 (MQ=255)
                           gcATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGc                                     >  1:1326844/1‑68 (MQ=255)
                           gcATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGc                                     >  1:1428865/1‑68 (MQ=255)
                           gcATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGc                                     >  1:3093357/1‑68 (MQ=255)
                           gcATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGc                                     >  1:2134890/1‑68 (MQ=255)
                           gcATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGc                                     >  1:1872897/1‑68 (MQ=255)
                           gcATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGc                                     >  1:2882413/1‑68 (MQ=255)
                           gcATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGc                                     >  1:403075/1‑68 (MQ=255)
                           gcATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGc                                     >  1:1570781/1‑68 (MQ=255)
                           gcATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGc                                     >  1:1018741/1‑68 (MQ=255)
                           gcATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGc                                     >  1:2334636/1‑68 (MQ=255)
                            cATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAgg                                      <  1:3426618/66‑1 (MQ=255)
                            cATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAgg                                      <  1:190632/66‑1 (MQ=255)
                            cATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAgg                                      <  1:327972/66‑1 (MQ=255)
                            cATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAgg                                      <  1:520462/66‑1 (MQ=255)
                            cATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAgg                                      <  1:29909/66‑1 (MQ=255)
                            cATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAgg                                      <  1:2822404/66‑1 (MQ=255)
                            cATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAgg                                      <  1:1488145/66‑1 (MQ=255)
                            cATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAgg                                      <  1:1083689/66‑1 (MQ=255)
                            cATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGt                                   <  1:3400560/69‑1 (MQ=255)
                            cATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGt                                   <  1:230564/69‑1 (MQ=255)
                            cATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGt                                   <  1:2424099/69‑1 (MQ=255)
                            cATTTCCCAGCAAGAACCATGCAATCACTGCCA‑CAGAAACGCGCCAAGATAGAACCACGCAAAGGCGt                                   <  1:96095/68‑1 (MQ=255)
                             aTTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGt                                   <  1:676218/68‑1 (MQ=255)
                                     gCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCtgc                           >  1:3314576/1‑67 (MQ=255)
                                     gCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCtgc                           >  1:1095892/1‑67 (MQ=255)
                                     gCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCtgc                           >  1:1938131/1‑67 (MQ=255)
                                     gCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCtgc                           >  1:2907418/1‑67 (MQ=255)
                                     gCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCtgc                           >  1:3002193/1‑67 (MQ=255)
                                     gCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCtgc                           >  1:902071/1‑67 (MQ=255)
                                     gCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCtgc                           >  1:2454924/1‑67 (MQ=255)
                                     gCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCtgc                           >  1:395907/1‑67 (MQ=255)
                                     gCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCtgc                           >  1:3136034/1‑67 (MQ=255)
                                     gCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCtgc                           >  1:3190049/1‑67 (MQ=255)
                                     gCAAGAACCATGCAATCACTGCCACCAGGAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCtg                            >  1:1984805/1‑67 (MQ=255)
                                                 cAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCTGTGGCATCGGGCGAg              >  1:373638/1‑69 (MQ=255)
                                                 cAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCTGTGGCATCGGGCGAg              >  1:3417409/1‑69 (MQ=255)
                                                 cAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCTGTGGCATCGGGCGAg              >  1:2610601/1‑69 (MQ=255)
                                                 cAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCTGTGGCATCGGGCGAg              >  1:1392425/1‑69 (MQ=255)
                                                     cACTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCTGTGGCATCGGGCGAGTTTc          >  1:881383/1‑69 (MQ=255)
                                                     cACTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCTGTGGCATCGGGCGAGTTTc          <  1:2224368/69‑1 (MQ=255)
                                                      aCTGCCACCAGAAACGCGCCAGGATAGAACCACGCAAAGGCGt                                   <  1:1760893/43‑1 (MQ=255)
                                                      aCTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGt                                   >  1:1155559/1‑43 (MQ=255)
                                                      aCTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGt                                   >  1:2343540/1‑43 (MQ=255)
                                                      aCTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGt                                   >  1:766107/1‑43 (MQ=255)
                                                      aCTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGt                                   <  1:1309653/43‑1 (MQ=255)
                                                      aCTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGt                                   >  1:637387/1‑43 (MQ=255)
                                                      aCTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGt                                   <  1:2722564/43‑1 (MQ=255)
                                                        tGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCTGTGGCATCGGGCGAGTTTCCa        <  1:633448/68‑1 (MQ=255)
                                                        tGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCTGTGGCATCGGGCGAGTTTCCa        <  1:3041351/68‑1 (MQ=255)
                                                             ccaGAAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCTGTGGCATCGGGCGAGTTTCCATCAGGc  >  1:2606887/1‑69 (MQ=255)
                                                             ccaGAAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCTGTGGCATCGGGCGAGTTTCCATCAGGc  >  1:1051243/1‑69 (MQ=255)
                                                             ccaGAAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCTGTGGCATCGGGCGAGTTTCCATCAGGc  >  1:397663/1‑69 (MQ=255)
                                                                gAAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCTGTGGc                        >  1:575831/1‑44 (MQ=255)
                                                                gAAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCTGTGGc                        >  1:1825180/1‑44 (MQ=255)
                                                                 |                                                                
TGCAGCGTGGTTTGCGGCATTTTCTGCGCATTTCCCAGCAAGAACCATGCAATCACTGCCACCAGAAACGCGCCAAGATAGAACCACGCAAAGGCGTTATGCTGTGGCATCGGGCGAGTTTCCATCAGGC  >  minE/2386930‑2387059

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