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 1,336,186 C→T 52.2% Q245Q (CAG→CAA)  gmd ← GDP‑D‑mannose dehydratase, NAD(P)‑binding

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,336,1860CT52.2% 3.8 / 100.0 111Q245Q (CAG→CAA) gmdGDP‑D‑mannose dehydratase, NAD(P)‑binding
Reads supporting (aligned to +/- strand):  ref base C (48/5);  new base T (35/23);  total (83/28)
Fisher's exact test for biased strand distribution p-value = 3.51e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.42e-01

Only 100 of 111 total aligned reads displayed.

CTGCCGCCATTTCCACGAACTGACGCACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGG  >  minE/1336119‑1336253
                                                                   |                                                                   
ctgcCGCCATTTCCACGAACTGACGCACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCt                                                                    >  1:2345504/1‑69 (MQ=255)
ctgcCGCCATTTCCACGAACTGACGCACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCt                                                                    >  1:709602/1‑69 (MQ=255)
ctgcCGCCATTTCCACGAACTGACGCACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCt                                                                    >  1:664442/1‑69 (MQ=255)
ctgcCGCCATTTCCACGAACTGACGCACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCt                                                                    >  1:3407229/1‑69 (MQ=255)
ctgcCGCCATTTCCACGAACTGACGCACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCt                                                                    >  1:1120160/1‑69 (MQ=255)
ctgcCGCCATTTCCACGAACTGACGCACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCt                                                                    >  1:298636/1‑69 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:3036811/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:1606267/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:2294687/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:2385196/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:2417733/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:2721018/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:2732954/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:2848591/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:2941095/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:3024521/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:1021443/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:3067955/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:3166240/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:550051/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:783760/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:88117/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:911824/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:104465/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:1322685/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:1362853/69‑3 (MQ=255)
         tttCCACGAACTGACGTACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCctgtt                                                           <  1:1421543/69‑3 (MQ=255)
           tCCACGAACTGACGCACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCtgctgc                                                         >  1:1101166/1‑69 (MQ=255)
           tCCACGAACTGACGCACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCtgctgc                                                         >  1:2730497/1‑69 (MQ=255)
                                tACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGcat                                                    >  1:1037333/1‑53 (MQ=255)
                                tACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCAttttt                                    >  1:977929/1‑69 (MQ=255)
                                tACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCAttttt                                    >  1:378781/1‑69 (MQ=255)
                                tACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCAttttt                                    >  1:3166109/1‑69 (MQ=255)
                                tACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCAttttt                                    >  1:314263/1‑69 (MQ=255)
                                tACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCAttttt                                    >  1:2071620/1‑69 (MQ=255)
                                tACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCAttttt                                    >  1:2031753/1‑69 (MQ=255)
                                tACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCAttttt                                    >  1:1647859/1‑69 (MQ=255)
                                tACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCAttttt                                    >  1:1921138/1‑69 (MQ=255)
                                tACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTACTGCTGCAGCATCATCCACTGCAtttt                                     >  1:531428/1‑68 (MQ=255)
                                 aCTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTa                                   >  1:2410148/1‑69 (MQ=255)
                                 aCTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGATGCAGCATCATCCACTGCATTTTTa                                   >  1:1272983/1‑69 (MQ=255)
                                  cTGAACGCCGGTCGCTATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTa                                   >  1:1067639/1‑68 (MQ=255)
                                  cTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTcc                                                               >  1:2469272/1‑40 (MQ=255)
                                  cTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTa                                   >  1:1977701/1‑68 (MQ=255)
                                  cTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTa                                   >  1:1054202/1‑68 (MQ=255)
                                  cTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTa                                   >  1:1826667/1‑68 (MQ=255)
                                  cTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTa                                   >  1:2498642/1‑68 (MQ=255)
                                  cTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTa                                   >  1:828927/1‑68 (MQ=255)
                                  cTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTa                                   >  1:606988/1‑68 (MQ=255)
                                  cTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTa                                   >  1:602441/1‑68 (MQ=255)
                                  cTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTa                                   >  1:3304775/1‑68 (MQ=255)
                                  cTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTa                                   >  1:1576770/1‑68 (MQ=255)
                                  cTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTa                                   >  1:3367721/1‑68 (MQ=255)
                                  cTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTa                                   >  1:1626833/1‑68 (MQ=255)
                                  cTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTa                                   >  1:2067371/1‑68 (MQ=255)
                                  cTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTa                                   >  1:1009964/1‑68 (MQ=255)
                                  cTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTa                                   >  1:3432069/1‑68 (MQ=255)
                                    gAACGCCGGTCGCGATGACGAAATCTTCCGGTTGTTCCTGTTGCAGcatc                                                   >  1:1315328/1‑50 (MQ=38)
                                    gAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCCTGTTGCAGcatc                                                   >  1:400172/1‑50 (MQ=39)
                                    gAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCCTGTTGCAGcatc                                                   >  1:1326003/1‑50 (MQ=39)
                                    gAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCCTGTTGCAGcatc                                                   >  1:1055194/1‑50 (MQ=39)
                                    gAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCCTGTTGCAGcatc                                                   >  1:1107660/1‑50 (MQ=39)
                                    gAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCCTGTTGCAGcatc                                                   >  1:3396230/1‑50 (MQ=39)
                                    gAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCCTGTTGCAGcatc                                                   >  1:413680/1‑50 (MQ=39)
                                    gAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCCTGTTGCAGcatc                                                   >  1:2734282/1‑50 (MQ=39)
                                    gAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCCTGTTGCAGcatc                                                   >  1:1985127/1‑50 (MQ=39)
                                    gAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCCTGTTGCAGcatc                                                   >  1:2249698/1‑50 (MQ=39)
                                    gAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCCTGTTGCAGcatc                                                   >  1:2565352/1‑50 (MQ=39)
                                    gAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCCTGTTGCAGcatc                                                   >  1:2561392/1‑50 (MQ=39)
                                    gAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCCTGTTGCAGcatc                                                   >  1:1484333/1‑50 (MQ=39)
                                    gAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCCTGTTGCAGcatc                                                   >  1:1519559/1‑50 (MQ=39)
                                    gAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTCCTGTTGCAGcatc                                                   >  1:720971/1‑50 (MQ=39)
                                    gAACGCCGGTCGCGATAACGAAATCTTCCGGTTGTTACTGTTGCAGcatc                                                   >  1:2603405/1‑50 (MQ=255)
                                     aaCGCCGGTCGCGATAACGGAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGt                                >  1:3217244/1‑68 (MQ=255)
                                     aaCGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTa                               >  1:3239341/1‑69 (MQ=255)
                                         ccGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTgca                                                        >  1:1553747/1‑40 (MQ=255)
                                              cgcgATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGc                      >  1:2278531/1‑69 (MQ=255)
                                              cgcgATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGc                      >  1:2668992/1‑69 (MQ=255)
                                              cgcgATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGc                      >  1:2161448/1‑69 (MQ=255)
                                              cgcgATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGc                      >  1:886167/1‑69 (MQ=255)
                                              cgcgATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGc                      >  1:1923165/1‑69 (MQ=255)
                                                        aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCAtttta                                    >  1:801630/1‑44 (MQ=38)
                                                        aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGcccc              >  1:1545059/1‑67 (MQ=255)
                                                        aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa             >  1:1932457/1‑68 (MQ=255)
                                                        aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa             >  1:1580017/1‑68 (MQ=255)
                                                        aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa             >  1:1727482/1‑68 (MQ=255)
                                                        aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa             >  1:3342658/1‑68 (MQ=255)
                                                        aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa             >  1:3291667/1‑68 (MQ=255)
                                                        aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa             >  1:1803991/1‑68 (MQ=255)
                                                        aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa             >  1:1312983/1‑68 (MQ=255)
                                                        aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa             >  1:1828488/1‑68 (MQ=255)
                                                        aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa             >  1:245572/1‑68 (MQ=255)
                                                        aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa             >  1:2202117/1‑68 (MQ=255)
                                                        aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa             >  1:2060917/1‑68 (MQ=255)
                                                        aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACAGCATTTTTACGTAGTCTTTGGCATGGCCCCa             >  1:1833324/1‑68 (MQ=255)
                                                                  gCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAggg  <  1:3247262/69‑1 (MQ=255)
                                                                  gCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAggg  <  1:1777576/69‑1 (MQ=255)
                                                                  gCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAggg  <  1:145022/69‑1 (MQ=255)
                                                                  gCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAggg  <  1:2160356/69‑1 (MQ=255)
                                                                  gCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAggg  <  1:1927089/69‑1 (MQ=255)
                                                                   |                                                                   
CTGCCGCCATTTCCACGAACTGACGCACGGAGTACTGAACGCCGGTCGCGATAACGAAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGG  >  minE/1336119‑1336253

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