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 2,356,754 C→T 40.5% L47L (CTC→CTT)  mobA → molybdopterin‑guanine dinucleotide synthase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,356,7540CT40.5% 65.5 / 97.3 138L47L (CTC→CTT) mobAmolybdopterin‑guanine dinucleotide synthase
Reads supporting (aligned to +/- strand):  ref base C (33/49);  new base T (14/42);  total (47/91)
Fisher's exact test for biased strand distribution p-value = 7.01e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.55e-01

Only 100 of 156 total aligned reads displayed.

AAAGGATTGCTTGAATTAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAGGCAAGCGGTCTGAAAGTGATTG  >  minE/2356686‑2356821
                                                                    |                                                                   
aaaGGATTGCTTGAATTAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGctc                                                                     >  1:1994199/1‑69 (MQ=255)
aaaGGATTGCTTGAATTAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGctc                                                                     >  1:2945460/1‑69 (MQ=255)
aaaGGATTGCTTGAATTAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGctc                                                                     >  1:143287/1‑69 (MQ=255)
 aaGGATTGCTTGAATTAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGctct                                                                    >  1:1681712/1‑69 (MQ=255)
 aaGGATTGCTTGAATTAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGctct                                                                    >  1:2353788/1‑69 (MQ=255)
 aaGGATTGCTTGAATTAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGctct                                                                    >  1:2896209/1‑69 (MQ=255)
 aaGGATTGCTTGAATTAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGctct                                                                    >  1:3253225/1‑69 (MQ=255)
 aaGGATTGCTTGAATTAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGctc                                                                     >  1:1919930/1‑68 (MQ=255)
      ttGCTTGAATTAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCa                                                                >  1:2253348/1‑68 (MQ=255)
        gCTTGAATTAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCAcgt                                                             >  1:2450567/1‑69 (MQ=255)
        gCTTGAATTAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCAcgt                                                             >  1:3019438/1‑69 (MQ=255)
        gCTTGAATTAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCAcgt                                                             >  1:3015492/1‑69 (MQ=255)
               ttAAACGGCAAACCATTATGGCAGTATGTCGCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGtt                                                      <  1:1715083/69‑1 (MQ=255)
               ttAAACGGCAAACCATTATGGCAGTATGTCGCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGtt                                                      <  1:2553808/69‑1 (MQ=255)
               ttAAACGGCAAACCATTATGGCAGTATGTCGCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGtt                                                      <  1:2826834/69‑1 (MQ=255)
               ttAAACGGCAAACCATTATGGCAGTATGTCGCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGtt                                                      <  1:710202/69‑1 (MQ=255)
               ttAAACGGCAAACCATTATGGCAGTATGTCGCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGtt                                                      <  1:2255352/69‑1 (MQ=255)
               ttAAACGGCAAACCATTATGGCAGTATGTCGCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGtt                                                      <  1:1368378/69‑1 (MQ=255)
               ttAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGtt                                                      <  1:2394611/69‑1 (MQ=255)
               ttAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGtt                                                      <  1:1824710/69‑1 (MQ=255)
               ttAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGtt                                                      <  1:1516751/69‑1 (MQ=255)
               ttAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGtt                                                      <  1:249603/69‑1 (MQ=255)
               ttAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGtt                                                      <  1:1019465/69‑1 (MQ=255)
                tAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGtt                                                      <  1:549188/68‑1 (MQ=255)
                tAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGtt                                                      <  1:2008133/68‑1 (MQ=255)
                 aaaCGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTaa                                                    <  1:676695/69‑1 (MQ=255)
                 aaaCGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTaa                                                    <  1:1578450/69‑1 (MQ=255)
                 aaaCGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTaa                                                    <  1:3339950/69‑1 (MQ=255)
                 aaaCGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTaa                                                    <  1:131483/69‑1 (MQ=255)
                 aaaCGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTaa                                                    <  1:1791138/69‑1 (MQ=255)
                 aaaCGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTaa                                                    <  1:817201/69‑1 (MQ=255)
                     ggCAAACCATTGTGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCt                                                <  1:3176112/69‑1 (MQ=255)
                     ggCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCt                                                <  1:3229097/69‑1 (MQ=255)
                     ggCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCt                                                <  1:2763992/69‑1 (MQ=255)
                           ccATTATGGCAACATGTCGCTGACGCGCTTATGACGCATCTCTCTCACGTCGTGGTTAATGCTAATCGt                                          <  1:1854962/69‑1 (MQ=255)
                           ccATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCg                                           >  1:2122928/1‑68 (MQ=255)
                           ccATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGt                                          <  1:2830874/69‑1 (MQ=255)
                           ccATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGt                                          <  1:2511191/69‑1 (MQ=255)
                           ccATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGt                                          <  1:2864458/69‑1 (MQ=255)
                           ccATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGt                                          <  1:593799/69‑1 (MQ=255)
                           ccATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGt                                          <  1:978415/69‑1 (MQ=255)
                           ccATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGt                                          <  1:2203289/69‑1 (MQ=255)
                           ccATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGt                                          <  1:1170307/69‑1 (MQ=255)
                           ccATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGt                                          <  1:1543095/69‑1 (MQ=255)
                              ttATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGt                                          <  1:961251/66‑1 (MQ=255)
                                        aTGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCt                             >  1:1328140/1‑69 (MQ=255)
                                        aTGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCt                             >  1:3383565/1‑69 (MQ=255)
                                           tCGCTGACGCGCTTATGCCGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATc                          >  1:689990/1‑69 (MQ=255)
                                           tCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATg                                                  >  1:933835/1‑45 (MQ=255)
                                           tCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCt                             >  1:1053071/1‑66 (MQ=255)
                                           tCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATc                          >  1:2972935/1‑69 (MQ=255)
                                           tCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATc                          >  1:3097764/1‑69 (MQ=255)
                                           tCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATc                          >  1:1741121/1‑69 (MQ=255)
                                           tCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATc                          >  1:2573466/1‑69 (MQ=255)
                                           tCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATc                          >  1:1930516/1‑69 (MQ=255)
                                           tCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATc                          >  1:2173943/1‑69 (MQ=255)
                                            cGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCt                                                <  1:474056/46‑1 (MQ=255)
                                             gCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGtca                                        >  1:1226823/1‑53 (MQ=255)
                                             gCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGaa                                 <  1:356855/60‑1 (MQ=255)
                                             gCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGaa                                 <  1:666822/60‑1 (MQ=255)
                                             gCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGaa                                 <  1:772598/60‑1 (MQ=255)
                                             gCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGaa                                 <  1:1237780/60‑1 (MQ=255)
                                             gCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGaa                                 <  1:870619/60‑1 (MQ=255)
                                             gCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGaa                                 <  1:2284595/60‑1 (MQ=255)
                                             gCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGaa                                 <  1:2073268/60‑1 (MQ=255)
                                             gCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGaa                                 <  1:2948869/60‑1 (MQ=255)
                                             gCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCa                         >  1:2998015/1‑68 (MQ=255)
                                             gCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCa                         >  1:809557/1‑68 (MQ=255)
                                             gCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCa                         >  1:3110710/1‑68 (MQ=255)
                                             gCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCa                         >  1:3162912/1‑68 (MQ=255)
                                             gCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCa                         >  1:679288/1‑68 (MQ=255)
                                             gCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCa                         >  1:2057753/1‑68 (MQ=255)
                                             gCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCa                         >  1:2397754/1‑68 (MQ=255)
                                             gCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCa                         >  1:2916694/1‑68 (MQ=255)
                                             gCTGACGCGCTTATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCa                         >  1:1203302/1‑68 (MQ=255)
                                                gACGCGCTTATGACGCAGCTCTCTCACGTCGTGGtt                                                      <  1:626186/36‑1 (MQ=255)
                                                    cgcTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAGGCAAGCg                 <  1:840462/69‑1 (MQ=255)
                                                    cgcTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAGGCAAGCg                 <  1:658969/69‑1 (MQ=255)
                                                    cgcTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAGGCAAGCg                 <  1:2655879/69‑1 (MQ=255)
                                                    cgcTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAGGCAAGCg                 <  1:1558777/69‑1 (MQ=255)
                                                    cgcTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAGGCAAGCg                 <  1:1540946/69‑1 (MQ=255)
                                                    cgcTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAGGCAAGCg                 <  1:1365126/69‑1 (MQ=255)
                                                      cTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAGGCAAGCGGt               >  1:1255899/1‑69 (MQ=255)
                                                      cTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAGGCAAGCGGt               >  1:30566/1‑69 (MQ=255)
                                                      cTTATGACGCAGCTCTCTCACGTCGTGGATAATGCTAATCGtcatc                                      >  1:439396/1‑46 (MQ=255)
                                                       ttATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAgg                       <  1:235312/60‑1 (MQ=255)
                                                       ttATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAgg                       <  1:1084837/60‑1 (MQ=255)
                                                       ttATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAgg                       <  1:1401519/60‑1 (MQ=255)
                                                       ttATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAgg                       <  1:243712/60‑1 (MQ=255)
                                                       ttATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAgg                       <  1:1112064/60‑1 (MQ=255)
                                                       ttATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAgg                       <  1:1464836/60‑1 (MQ=255)
                                                       ttATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAgg                       <  1:3239068/60‑1 (MQ=255)
                                                       ttATGACGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAgg                       <  1:420342/60‑1 (MQ=255)
                                                        tATGACGCAGCTTTCTCTCGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAgg                       <  1:410128/59‑1 (MQ=255)
                                                            aCGCAGCTTTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAgg                       <  1:188892/55‑1 (MQ=255)
                                                                   tctctcACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAGGCAAGCGGTCTGAAAGTGATTg  <  1:2210305/69‑1 (MQ=255)
                                                                   tctctcACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAGGCAAGCGGTCTGAAAGTGATTg  <  1:2145675/69‑1 (MQ=255)
                                                                   tctctcACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAGGCAAGCGGTCTGAAAGTGATTg  <  1:2530598/69‑1 (MQ=255)
                                                                   tctctcACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAGGCAAGCGGTCTGAAAGTGATTg  <  1:422530/69‑1 (MQ=255)
                                                                    ctctcACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAGGCAAGCGGTCTGAAAGTGAt    >  1:1438400/1‑66 (MQ=255)
                                                                    |                                                                   
AAAGGATTGCTTGAATTAAACGGCAAACCATTATGGCAACATGTCGCTGACGCGCTTATGACGCAGCTCTCTCACGTCGTGGTTAATGCTAATCGTCATCAGGAAATCTATCAGGCAAGCGGTCTGAAAGTGATTG  >  minE/2356686‑2356821

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