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
A11 F28 I1 R1 134 60.5 2175152 94.0% 2044642 138.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,502,847 A→G T131A (ACC→GCC)  ydcL → DUF3313 domain‑containing lipoprotein YdcL

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,502,8470AG96.2% 184.7 / ‑0.1 53coding (391/669 nt)ydcLDUF3313 domain‑containing lipoprotein YdcL
Reads supporting (aligned to +/- strand):  ref base A (0/0);  major base G (22/29);  minor base . (1/1);  total (23/30)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GCAGAAAGTTCTGGATAAAATTTTGAACTATACCAACACCGAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATACCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCGTACCATGGATACTCGCCTCTATTTTGAAGGTGAG  >  NC_000913/1502714‑1502963
                                                                                                                                     |                                                                                                                    
gCAGAAAGTTCTGGATAAAATTTTGAACTATACCAACACCGAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCa                                                                                                                >  1:721463/1‑140 (MQ=255)
    aaaGTTCTGGATAAAATTTTGAACTATACCAACACCGAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAg                                                                                                                  >  1:459509/1‑134 (MQ=255)
    aaaGTTCTGGATAAAATTTTGAACTATACCAACACCGAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAg                                                                                                                  <  2:459509/134‑1 (MQ=255)
    aaaGTTCTGGATAAAATTTTGAACTATACCAACACCGAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAaaga                                                                                                            >  1:875884/1‑140 (MQ=255)
           tGGATAAAATTTTGAACTATACCAACACCGAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTg                                                                                                     >  1:175748/1‑140 (MQ=255)
           tGGATAAAATTTTGAACTATACCAACACCGAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTg                                                                                                     <  2:308079/140‑1 (MQ=255)
           tGGATAAAATTTTGAACTATACCAACACCGAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGAT‑GCAGCAAAGAAGGGCTGc                                                                                                    >  2:434709/1‑140 (MQ=255)
             gATAAAATTTTGAACTATACCAACACCGAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCa                                                                                                   <  2:1052054/140‑1 (MQ=255)
             gATAAAATTTTGAACTATACCAACACCGAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCa                                                                                                   <  2:721463/140‑1 (MQ=255)
                     tttGAACTATACCAACACCGAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATg                                                                                           <  1:108363/140‑1 (MQ=255)
                        gAACTATACCAACACCGAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAg                                                                                        <  2:750701/140‑1 (MQ=255)
                            tataCCAACACCGAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTACGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGt                                                                                    <  1:409029/140‑1 (MQ=255)
                             ataCCAACACCGAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGtt                                                                                   <  2:875884/140‑1 (MQ=255)
                              taCCAACACCGAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTc                                                                                  >  2:317691/1‑140 (MQ=255)
                                    cacCGAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTg                                                                            >  2:682692/1‑140 (MQ=255)
                                      ccGAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCGGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCa                                                                          <  2:174787/140‑1 (MQ=255)
                                      ccGAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCa                                                                          >  1:324346/1‑140 (MQ=255)
                                        gAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCACTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCAtt                                                                        >  2:172712/1‑140 (MQ=255)
                                         aaaTGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCAGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTa                                                                       >  1:222447/1‑140 (MQ=255)
                                               aagaagCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGtt                                                                 >  1:458683/1‑140 (MQ=255)
                                                   agCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCgg                                                             >  1:499787/1‑140 (MQ=255)
                                                    gCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCAtt                                                                        <  1:952041/128‑1 (MQ=255)
                                                    gCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCAtt                                                                        >  2:952041/1‑128 (MQ=255)
                                                        tAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACg                                                        >  2:884762/1‑140 (MQ=255)
                                                        tAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACg                                                        <  2:220163/140‑1 (MQ=255)
                                                              aGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATg                                                  >  2:459699/1‑140 (MQ=255)
                                                                    aaCCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACa                                            <  1:156808/140‑1 (MQ=255)
                                                                      ccACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGAT‑GCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGc                                         <  1:434709/140‑1 (MQ=255)
                                                                          tGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCAc                                      >  1:175386/1‑140 (MQ=255)
                                                                          tGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCAc                                      <  2:175386/140‑1 (MQ=255)
                                                                           ggTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCAcc                                     <  1:459699/140‑1 (MQ=255)
                                                                            gTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCg                                    <  2:324346/140‑1 (MQ=255)
                                                                             ttACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCGt                                   <  1:172712/140‑1 (MQ=255)
                                                                                 caccGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCAc                                      <  2:276901/133‑1 (MQ=255)
                                                                                 caccGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCAc                                      >  1:276901/1‑133 (MQ=255)
                                                                                    cGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCGTACCATgg                            <  2:154980/140‑1 (MQ=255)
                                                                                      cTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCa                                       >  1:851712/1‑127 (MQ=255)
                                                                                      cTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCa                                       <  2:851712/127‑1 (MQ=255)
                                                                                       tGGGCAGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCGTACCATGGATa                         <  2:222447/140‑1 (MQ=255)
                                                                                         ggCTGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCGTACCATGGATACt                       <  1:682692/140‑1 (MQ=255)
                                                                                          gCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCGTACCATGGATACTc                      >  1:289738/1‑140 (MQ=255)
                                                                                           ccGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCGTACCATGGATACTCg                     <  2:175748/140‑1 (MQ=255)
                                                                                              cgTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCGTACCATGGATACTCGCct                  <  1:317691/140‑1 (MQ=255)
                                                                                                     tGATTTTCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCGTACCATGGATACTCGCCTCTAtttt           >  2:801586/1‑140 (MQ=255)
                                                                                                         tttCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCGTACCATGGATACTCGCCTCTATTTTGAAg       <  1:801586/140‑1 (MQ=255)
                                                                                                         tttCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCGTACCATGGATACTCGCCTCTATTTTGAAg       >  2:788300/1‑140 (MQ=255)
                                                                                                          ttCCGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCGTACCATGGATACTCGCCTCTATTTTGAAgg      <  2:289738/140‑1 (MQ=255)
                                                                                                             cGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCGTACCATGGATACTCGCCTCTAttt            >  1:318675/1‑131 (MQ=255)
                                                                                                             cGTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCGTACCATGGATACTCGCCTCTAttt            <  2:318675/131‑1 (MQ=255)
                                                                                                              gTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCGTACCATGGATACTCGCCTCTATTTTGAAGGTGAg  <  2:499787/140‑1 (MQ=255)
                                                                                                              gTGGGGCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCGTACCATGGATACTCGCCTCTATTTTGAAGGTGAg  <  2:234466/140‑1 (MQ=255)
                                                                                                                 gggCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCGTACCATGGATACTCGCCTCTATTTTGAAg       <  2:49626/132‑1 (MQ=255)
                                                                                                                 gggCCATTACCGGTGTAGATGCCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCGTACCATGGATACTCGCCTCTATTTTGAAg       >  1:49626/1‑132 (MQ=255)
                                                                                                                                     |                                                                                                                    
GCAGAAAGTTCTGGATAAAATTTTGAACTATACCAACACCGAAATGAAAGAAGCGATAGCGCAGCGTAAACCACTGGTTACCACCGCTGGGCCGCGTAGTCTGATTTTCCGTGGGGCCATTACCGGTGTAGATACCAGCAAAGAAGGGCTGCAATTCTATGAAGTGGTTCCTGTTGCATTAGTGGTTGCGGGGACGCAAATGGCTACAGGCCACCGTACCATGGATACTCGCCTCTATTTTGAAGGTGAG  >  NC_000913/1502714‑1502963

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A