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 366,756 A→G 42.4% R212R (CGT→CGC)  fepA ← iron‑enterobactin outer membrane transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE366,7560AG42.4% 30.0 / 81.8 106R212R (CGT→CGC) fepAiron‑enterobactin outer membrane transporter
Reads supporting (aligned to +/- strand):  ref base A (35/26);  new base G (31/14);  total (66/40)
Fisher's exact test for biased strand distribution p-value = 3.11e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.60e-01

Only 100 of 108 total aligned reads displayed.

CGGACTGATGGCCCTGGTTGATATCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCACCTTCCTC  >  minE/366692‑366824
                                                                |                                                                    
cgGACTGATGGCCCTGGTTGATATCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGa                                                                  <  1:3334323/69‑1 (MQ=255)
cgGACTGATGGCCCTGGTTGATATCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGa                                                                  <  1:1609678/69‑1 (MQ=255)
cgGACTGATGGCCCTGGTTGATATCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGa                                                                  <  1:2756882/69‑1 (MQ=255)
cgGACTGATGGCCCTGGTTGATATCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGa                                                                  <  1:1496939/69‑1 (MQ=255)
cgGACTGATGGCCCTGGTTGATATCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGa                                                                  <  1:390190/69‑1 (MQ=255)
cgGACTGATGGCCCTGGTTGATATCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGa                                                                  <  1:1876067/69‑1 (MQ=255)
                gTTGATATCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGAAGc                                                               >  1:1877989/1‑56 (MQ=255)
                gTTGATATCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGAAGCTGAATtcgtcg                                                    >  1:2289520/1‑67 (MQ=255)
                  tGATATCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGAAGCTGAATTCGTCGCCCa                                                >  1:2696990/1‑69 (MQ=255)
                  tGATATCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGAAGCTGAATTCGTCGCCCa                                                >  1:2292479/1‑69 (MQ=255)
                  tGATATCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGAAGCTGAATTCGTCGCCCa                                                >  1:3063495/1‑69 (MQ=255)
                  tGATATCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGAAGCTGAATTCGTCGCCCa                                                >  1:2816618/1‑69 (MQ=255)
                     tttCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:3181211/3‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGc                                                               >  1:1499399/1‑51 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:2558733/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:2030348/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:267720/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:2495062/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:1991372/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:2145996/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:2028585/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:2132712/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:2678907/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:2799710/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:2934396/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:3372604/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:3390076/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:344110/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:470643/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:537935/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:541800/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:714488/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:818890/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:948578/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:1863008/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:1851116/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:1326751/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:1836911/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:1188661/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:1463995/1‑67 (MQ=255)
                     tatCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAg                                               >  1:1717029/1‑67 (MQ=255)
                      atCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGAAGCTGAATTCGTCGCCCAGCgg                                            >  1:2664755/1‑69 (MQ=255)
                      atCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGAAGCTGAATTCGTCGCCCAGCgg                                            >  1:3149978/1‑69 (MQ=255)
                         ccACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGAcc                                         >  1:1339088/1‑69 (MQ=255)
                         ccACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGAcc                                         >  1:1224202/1‑69 (MQ=255)
                            cgcgTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCg                                        >  1:1184544/1‑67 (MQ=255)
                            cgcgTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCg                                        >  1:1494290/1‑67 (MQ=255)
                                tCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCa                                    >  1:2143057/1‑67 (MQ=255)
                                tCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAg                                   >  1:1671853/1‑68 (MQ=255)
                                          ttttGTCGAGGTTGCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGt                           >  1:1230267/1‑66 (MQ=255)
                                          ttttGTCGAGGTTGCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGt                           >  1:1292056/1‑66 (MQ=255)
                                          ttttGTCGAGGTTGCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGt                           >  1:861800/1‑66 (MQ=255)
                                              gTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAGCGGACCTGTCAGGCTGAAGTTGGTGc                     <  1:2508693/68‑1 (MQ=255)
                                              gTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTGAAGTTGGTGc                     <  1:2615613/68‑1 (MQ=255)
                                              gTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTGAAGTTGGTGc                     <  1:2073992/68‑1 (MQ=255)
                                              gTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTGAAGTTGGTGc                     <  1:2677736/68‑1 (MQ=255)
                                              gTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTGAAGTTGGTGc                     <  1:1611992/68‑1 (MQ=255)
                                              gTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTGAAGTTGGTGc                     <  1:2679732/68‑1 (MQ=255)
                                              gTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTGAAGTTGGTGc                     <  1:3366421/68‑1 (MQ=255)
                                              gTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTGAAGTTGGTGc                     <  1:3409524/68‑1 (MQ=255)
                                              gTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTGAAGTTGGTGc                     <  1:632399/68‑1 (MQ=255)
                                              gTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTGAAGTTGGTGc                     <  1:2741552/68‑1 (MQ=255)
                                              gTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTGAAGTTGGTGc                     <  1:1727065/68‑1 (MQ=255)
                                              gTCGAGGTTGCCATACAAGCGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTGAAGTTGGTGc                     <  1:1452538/68‑1 (MQ=255)
                                                      tGCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTtggtgg            >  1:3220346/1‑69 (MQ=255)
                                                      tGCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTtggtgg            >  1:1406632/1‑69 (MQ=255)
                                                      tGCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTtggtgg            >  1:2683503/1‑69 (MQ=255)
                                                       gCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGc           <  1:2869796/69‑1 (MQ=255)
                                                       gCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGc           <  1:233895/69‑1 (MQ=255)
                                                       gCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGc           <  1:2383455/69‑1 (MQ=255)
                                                       gCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGc           <  1:821247/69‑1 (MQ=255)
                                                       gCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGc           <  1:1933110/69‑1 (MQ=255)
                                                       gCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGc           <  1:1798793/69‑1 (MQ=255)
                                                       gCCATACAAACGGAAGCTGAATTCCTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGc           <  1:764578/69‑1 (MQ=255)
                                                         cATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCa          <  1:128335/68‑1 (MQ=255)
                                                         cATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCa          <  1:522019/68‑1 (MQ=255)
                                                         cATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCa          <  1:632993/68‑1 (MQ=255)
                                                         cATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCa          <  1:1182440/68‑1 (MQ=255)
                                                         cATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCa          <  1:1324106/68‑1 (MQ=255)
                                                         cATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCa          <  1:2400367/68‑1 (MQ=255)
                                                         cATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCa          <  1:1637754/68‑1 (MQ=255)
                                                         cATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCa          <  1:312825/68‑1 (MQ=255)
                                                         cATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCa          <  1:3043591/68‑1 (MQ=255)
                                                          aTACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCa          <  1:1503912/67‑1 (MQ=255)
                                                          aTACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCAcc        >  1:2648/1‑69 (MQ=255)
                                                          aTACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCAcc        >  1:1551271/1‑69 (MQ=255)
                                                          aTACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCAcc        >  1:54345/1‑69 (MQ=255)
                                                          aTACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCAcc        >  1:2721517/1‑69 (MQ=255)
                                                             cAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCTGGCTAAAGtt                          <  1:2239256/48‑1 (MQ=255)
                                                             cAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGtt                          <  1:683206/48‑1 (MQ=255)
                                                             cAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGtt                          <  1:748148/48‑1 (MQ=255)
                                                             cAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTtggt              >  1:501764/1‑60 (MQ=255)
                                                             cAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCACCtt      >  1:2282922/1‑68 (MQ=255)
                                                             cAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCACCTTc     >  1:480016/1‑69 (MQ=255)
                                                             cAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCACCTTc     >  1:127526/1‑69 (MQ=255)
                                                             cAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCACCTTc     >  1:108408/1‑69 (MQ=255)
                                                             cAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCACCTTc     >  1:850440/1‑69 (MQ=255)
                                                             cAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCACCTTc     >  1:3146383/1‑69 (MQ=255)
                                                               aaCGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCACCTTCct   >  1:851866/1‑69 (MQ=255)
                                                                aCGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCACCTTCctc  <  1:1282686/69‑1 (MQ=255)
                                                                |                                                                    
CGGACTGATGGCCCTGGTTGATATCCCACGCGTCAGCCTGGGTTTTGTCGAGGTTGCCATACAAACGGAAGCTGAATTCGTCGCCCAGCGGACCGGTCAGGCTAAAGTTAGTGCGTTTGGTGGCACCTTCCTC  >  minE/366692‑366824

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