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 2,987,586 T→C 52.1% L119L (TTG→CTG)  yjtD → predicted rRNA methyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,987,5860TC52.1% 9.2 / 85.1 100L119L (TTG→CTG) yjtDpredicted rRNA methyltransferase
Reads supporting (aligned to +/- strand):  ref base T (3/45);  new base C (30/22);  total (33/67)
Fisher's exact test for biased strand distribution p-value = 2.78e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 107 total aligned reads displayed.

GAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCG  >  minE/2987529‑2987654
                                                         |                                                                    
gAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGaa                                                           <  1:2598790/69‑1 (MQ=255)
  aaaaTCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAaga                                                         >  1:1616511/1‑69 (MQ=255)
     aTCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGtt                                                      <  1:1120735/69‑1 (MQ=255)
     aTCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGtt                                                      <  1:1299436/69‑1 (MQ=255)
       cTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAg                                                    <  1:24930/69‑1 (MQ=255)
       cTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAg                                                    <  1:1113752/69‑1 (MQ=255)
       cTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAg                                                    <  1:3028804/69‑1 (MQ=255)
       cTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAg                                                    <  1:1587947/69‑1 (MQ=255)
       cTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAg                                                    <  1:60312/69‑1 (MQ=255)
       cTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAg                                                    <  1:156135/69‑1 (MQ=255)
             ggATGAGCCATGCCTCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:473801/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGa                                                            >  1:2359022/1‑55 (MQ=39)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGtt                                                >  1:2515251/1‑67 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:2538708/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:2187850/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:2020811/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:1103186/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:3419291/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:1979850/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:2535906/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:1751728/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:1053707/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:1211632/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:895218/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:239678/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:1500919/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:2219971/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:299393/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:843844/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:862664/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:1575272/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg                                              >  1:3310402/1‑69 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTg                                               >  1:3030242/1‑68 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTg                                               >  1:1952301/1‑68 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTg                                               >  1:1695163/1‑68 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTg                                               >  1:3328659/1‑68 (MQ=255)
             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTg                                               >  1:277077/1‑68 (MQ=255)
                    ccATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGt                                       <  1:133333/69‑1 (MQ=255)
                    ccATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGt                                       <  1:581282/69‑1 (MQ=255)
                     cATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGtt                                      <  1:1456431/69‑1 (MQ=255)
                     cATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGtt                                      <  1:2987018/69‑1 (MQ=255)
                     cATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGtt                                      <  1:2692261/69‑1 (MQ=255)
                     cATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGtt                                      <  1:2744418/69‑1 (MQ=255)
                     cATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGt                                       <  1:2951498/68‑1 (MQ=255)
                     cATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGt                                       <  1:642636/68‑1 (MQ=255)
                     cATGCCGCGCTGGTGTTTGGTCGCAAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGt                                       <  1:1661095/68‑1 (MQ=255)
                       tGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCt                                    <  1:1296729/69‑1 (MQ=255)
                       tGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCt                                    <  1:2458096/69‑1 (MQ=255)
                       tGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCt                                    <  1:3125710/69‑1 (MQ=255)
                       tGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCt                                    <  1:1999703/69‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCt                                    <  1:2398597/56‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCg                       >  1:2387792/1‑69 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:908385/40‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:3217322/40‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:771174/40‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:723220/40‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:708657/40‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:581402/40‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:491871/40‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:470416/40‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:461494/40‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:3427699/40‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:3264120/40‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:315490/40‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:1545514/40‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:1570652/40‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:1712921/40‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:1758885/40‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:1471125/40‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:2480372/40‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:1931487/40‑1 (MQ=255)
                                    tttGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAg                                                    <  1:1450865/40‑1 (MQ=255)
                                      tGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGa                      <  1:1983663/68‑1 (MQ=255)
                                      tGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGa                      <  1:1676939/68‑1 (MQ=255)
                                      tGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGa                      <  1:2088875/68‑1 (MQ=255)
                                      tGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGa                      <  1:2366392/68‑1 (MQ=255)
                                      tGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGa                      <  1:2494860/68‑1 (MQ=255)
                                      tGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGa                      <  1:694858/68‑1 (MQ=255)
                                      tGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGa                      <  1:2880674/68‑1 (MQ=255)
                                      tGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGAt                     <  1:1412996/69‑1 (MQ=255)
                                      tGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGAt                     <  1:2396076/69‑1 (MQ=255)
                                      tGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGAt                     >  1:368031/1‑69 (MQ=255)
                                      tGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGAt                     <  1:434171/69‑1 (MQ=255)
                                      tGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGAt                     <  1:1362105/69‑1 (MQ=255)
                                      tGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGAt                     <  1:1325796/69‑1 (MQ=255)
                                      tGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGAt                     <  1:1670276/69‑1 (MQ=255)
                                      tGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGAt                     <  1:1594781/69‑1 (MQ=255)
                                      tGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGAt                     <  1:64263/69‑1 (MQ=255)
                                      tGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGAt                     <  1:1542539/69‑1 (MQ=255)
                                       ggTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGAt                     <  1:367653/68‑1 (MQ=255)
                                       ggTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGAt                     <  1:657705/68‑1 (MQ=255)
                                       ggTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGAt                     <  1:2582027/68‑1 (MQ=255)
                                       ggTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGAt                     <  1:1186612/68‑1 (MQ=255)
                                                         ttGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTc   >  1:2923218/1‑68 (MQ=255)
                                                         ttGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTc   >  1:2210492/1‑68 (MQ=255)
                                                         ttGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTc   >  1:2828595/1‑68 (MQ=255)
                                                         ttGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCg  >  1:1839492/1‑69 (MQ=255)
                                                         ttGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCg  >  1:2331785/1‑69 (MQ=255)
                                                         ttGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCg  <  1:2658621/69‑1 (MQ=255)
                                                         ttGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCg  >  1:2890831/1‑69 (MQ=255)
                                                         |                                                                    
GAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCTTACTGGTGTGCCGATGGTGGCGGATTATCCTTCG  >  minE/2987529‑2987654

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