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 2,987,558 G→T 51.1% A109A (GCG→GCT)  yjtD → predicted rRNA methyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,987,5580GT51.1% 1.7 / 116.7 92A109A (GCG→GCT) yjtDpredicted rRNA methyltransferase
Reads supporting (aligned to +/- strand):  ref base G (8/37);  new base T (31/16);  total (39/53)
Fisher's exact test for biased strand distribution p-value = 2.93e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.30e-01

CCACGCCAGTTGAACTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCT  >  minE/2987497‑2987620
                                                             |                                                              
ccacgccaGTTGAACTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGgtgt                                                         <  1:1244465/69‑1 (MQ=255)
ccacgacaGTTGAACTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGgtgt                                                         <  1:2018228/69‑1 (MQ=255)
         ttGAACTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTcgcg                                                <  1:1034394/69‑1 (MQ=255)
         ttGAACTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTcgcg                                                <  1:2498310/69‑1 (MQ=255)
         ttGAACTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTcgcg                                                <  1:1378368/69‑1 (MQ=255)
         ttGAACTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTcgcg                                                <  1:1357526/69‑1 (MQ=255)
         ttGAACTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTcgcg                                                <  1:2996950/69‑1 (MQ=255)
         ttGAACTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTcgcg                                                <  1:3279533/69‑1 (MQ=255)
         ttGAACTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTcgcg                                                <  1:577014/69‑1 (MQ=255)
         ttGAACTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTcgcg                                                <  1:8510/69‑1 (MQ=255)
         ttGAACTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTcgcg                                                <  1:900611/69‑1 (MQ=255)
         ttGAACTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTcgcg                                                <  1:980925/69‑1 (MQ=255)
          tGAACTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTcg                                                  >  1:85001/1‑66 (MQ=255)
           gAACTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGaa                                              <  1:1510056/69‑1 (MQ=255)
           gAACTGGTCCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGaa                                              <  1:2549441/69‑1 (MQ=255)
            aaCTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGaa                                              <  1:655987/68‑1 (MQ=255)
                 gTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTcc                                        >  1:45135/1‑69 (MQ=255)
                 gTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTcc                                        >  1:24341/1‑69 (MQ=255)
                 gTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTcc                                        >  1:1040964/1‑69 (MQ=255)
                 gTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTcc                                        >  1:1866170/1‑69 (MQ=255)
                 gTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTcc                                        >  1:1483282/1‑69 (MQ=255)
                 gTGCCGATGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTcc                                        >  1:2417275/1‑69 (MQ=255)
                      gCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCgggct                                   <  1:1588016/69‑3 (MQ=255)
                      gCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCgggct                                   <  1:93657/69‑3 (MQ=255)
                      gCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCgggct                                   <  1:806843/69‑3 (MQ=255)
                      gCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCgggct                                   <  1:534296/69‑3 (MQ=255)
                      gCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCgggct                                   <  1:482367/69‑3 (MQ=255)
                      gCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCgggct                                   <  1:3308361/69‑3 (MQ=255)
                      gCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCgggct                                   <  1:1304566/69‑3 (MQ=255)
                      gCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCgggct                                   <  1:3253177/69‑3 (MQ=255)
                      gCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCgggct                                   <  1:3224501/69‑3 (MQ=255)
                      gCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCgggct                                   <  1:2954895/69‑3 (MQ=255)
                      gCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCgggct                                   <  1:2950977/69‑3 (MQ=255)
                      gCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCgggct                                   <  1:2741294/69‑3 (MQ=255)
                      gCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCgggct                                   <  1:2285809/69‑3 (MQ=255)
                      gCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCgggct                                   <  1:2216709/69‑3 (MQ=255)
                      gCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCgggct                                   <  1:1755826/69‑3 (MQ=255)
                      gCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCAgggct                                   <  1:2168110/69‑3 (MQ=255)
                                gAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGaa                         <  1:2598790/69‑1 (MQ=255)
                                  aaaaTCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAaga                       >  1:1616511/1‑69 (MQ=255)
                                     aTCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGtt                    <  1:1299436/69‑1 (MQ=255)
                                     aTCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGtt                    <  1:1120735/69‑1 (MQ=255)
                                       cTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAg                  <  1:1587947/69‑1 (MQ=255)
                                       cTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAg                  <  1:3028804/69‑1 (MQ=255)
                                       cTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAg                  <  1:24930/69‑1 (MQ=255)
                                       cTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAg                  <  1:60312/69‑1 (MQ=255)
                                       cTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAg                  <  1:1113752/69‑1 (MQ=255)
                                       cTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAg                  <  1:156135/69‑1 (MQ=255)
                                             ggATGAGCCATGCCTCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:473801/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTcc                                        >  1:2040433/1‑41 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGa                          >  1:2359022/1‑55 (MQ=39)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGtt              >  1:2515251/1‑67 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:3419291/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:3310402/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:1575272/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:1751728/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:2219971/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:540249/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:1211632/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:843844/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:862664/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:895218/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:1103186/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:1053707/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:2187850/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:239678/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:1500919/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:299393/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:2020811/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:2535906/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:1979850/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:2538708/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTgg            >  1:2615590/1‑69 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTg             >  1:1952301/1‑68 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTg             >  1:277077/1‑68 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTg             >  1:1695163/1‑68 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTg             >  1:3030242/1‑68 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGTCGCGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTg             >  1:3328659/1‑68 (MQ=255)
                                             ggATGAGCCATGCCGCTCTGGTGTTTGGT‑‑CGAAGATTCCGGGCTGACTAACGAAGAGTTAGCGTTGGCt          >  1:972652/1‑69 (MQ=255)
                                                    ccATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGt     <  1:581282/69‑1 (MQ=255)
                                                    ccATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGt     <  1:133333/69‑1 (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  <  1:1999703/69‑1 (MQ=255)
                                                       tGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCt  <  1:2458096/69‑1 (MQ=255)
                                                       tGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCt  <  1:1296729/69‑1 (MQ=255)
                                                       tGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCt  <  1:3125710/69‑1 (MQ=255)
                                                             |                                                              
CCACGCCAGTTGAACTGGTGCCGCTGTTAGAGGAAAAATCTTCATGGATGAGCCATGCCGCGCTGGTGTTTGGTCGCGAAGATTCCGGGTTGACTAACGAAGAGTTAGCGTTGGCTGACGTTCT  >  minE/2987497‑2987620

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