Predicted mutation
evidence seq id position mutation freq annotation gene description
RA ACB143 44,293 Δ1 bp 100% intergenic (+124/‑367) oprD_1 → / → czcR_2 Porin D/Transcriptional activator protein CzcR

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*ACB14344,2930T.93.0% 231.9 / 9.8 57intergenic (+124/‑367)oprD_1/czcR_2Porin D/Transcriptional activator protein CzcR
Reads supporting (aligned to +/- strand):  ref base T (1/2);  new base . (22/31);  total (24/33)
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
Rejected as polymorphism: Variant not supported by required number of reads on each strand.
Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch.

TTCTGTAATTCGCTAACTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCCTTTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTGAGCGGAACGAAGCCAGC  >  ACB143/44162‑44424
                                                                                                                                   |                                                                                                                                   
ttCTGTAATTCGCTAACTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCCttttt                                                                                                                                 >  5:260986/1‑136 (MQ=255)
ttCTGTAATTCGCTAACTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGAGACttttt                                                                                                                                 >  5:266712/1‑136 (MQ=255)
      aaTTCGCTAACTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCCttttttttgcc                                                                                                                           >  5:163925/1‑133 (MQ=255)
           gCTAACTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGAATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCATGGGAAAAAGGTGGAAATTTGTCGCCGATTGCGCGCC‑TTTTTTTTGCCTaaa                                                                                                                      >  4:53964/1‑135 (MQ=255)
             tAACTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAatat                                                                                                                    >  4:246458/1‑135 (MQ=255)
             tAACTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAAtt                                                                                                                   >  2:172492/1‑136 (MQ=255)
               aCTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGGATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCa                                                                                                                 <  5:176335/136‑1 (MQ=255)
               aCTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCa                                                                                                                 <  7:84618/136‑1 (MQ=255)
                cTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTc                                                                                                                  >  4:37903/1‑134 (MQ=255)
                    gCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAg                                                                                                            <  6:115886/136‑1 (MQ=255)
                    gCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAg                                                                                                            <  5:214114/136‑1 (MQ=255)
                         ttATCCATTGGCGGGTCCTGTTAGTAAAACGATGATTACGCATTCAGCTTGAGTGGCTTAAGTGCTCCTTTGGTTAAAGGTGGATATTTTGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGtt                                                                                                       <  2:68450/136‑1 (MQ=255)
                         ttATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGtt                                                                                                       <  2:142090/136‑1 (MQ=255)
                                    cGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCCTTTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTAcg                                                                                             >  3:346276/1‑136 (MQ=255)
                                     gggTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTAcgca                                                                                           >  7:119421/1‑136 (MQ=255)
                                     gggTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCGCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTAcgca                                                                                           <  7:328701/136‑1 (MQ=255)
                                      ggTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAATTAGGCGTTCGATTGTAcgcat                                                                                          >  4:12264/1‑136 (MQ=255)
                                          cTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTAcgcatcgc                                                                                       <  8:159755/135‑1 (MQ=255)
                                               aGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCg                                                                                 >  2:230672/1‑136 (MQ=255)
                                                    aaCGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑GTTTTTTTGCCTAAAATTAAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTg                                                                              >  7:167371/1‑134 (MQ=255)
                                                       gAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGtt                                                                         <  5:39880/136‑1 (MQ=255)
                                                            ttACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGa                                                                    <  7:323430/136‑1 (MQ=255)
                                                            ttACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGa                                                                    <  7:134421/136‑1 (MQ=255)
                                                            ttACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGa                                                                    <  1:347253/136‑1 (MQ=255)
                                                            ttACGCATTCACCTTGAGTGGCTTAAGTGATCCTTTGGTAAAAGTTTGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGa                                                                    <  1:349655/136‑1 (MQ=255)
                                                            ttACGCATTCACCATGAGTGGCATAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCGCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGa                                                                    <  1:344081/136‑1 (MQ=255)
                                                                      aCCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCCTTTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCaa                                                           <  4:346276/136‑1 (MQ=255)
                                                                      aCCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCaa                                                           <  3:228935/135‑1 (MQ=255)
                                                                      aCCTTGAGTGGCGTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCAATGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAAt                                                          <  4:65059/136‑1 (MQ=255)
                                                                           gAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGAcc                                                      <  2:105293/135‑1 (MQ=255)
                                                                           gAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGAcc                                                      <  2:312185/135‑1 (MQ=255)
                                                                           gAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGAc                                                       <  4:382458/134‑1 (MQ=255)
                                                                           gAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGAc                                                       <  8:13451/134‑1 (MQ=255)
                                                                           gAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGAc                                                       <  7:85467/134‑1 (MQ=255)
                                                                             gttgCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGt                                                   <  6:266712/133‑1 (MQ=255)
                                                                              tGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGt                                                   <  6:260986/135‑1 (MQ=255)
                                                                               ggCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGtct                                                 >  8:170481/1‑136 (MQ=255)
                                                                               ggCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑GTTTTTTTGCCTAAAATTAAATTAGGCGTTAGATTGTACGCCTAGCATTCCGGTGAAGTTAATGAATACACCAATTACCAGtgt                                                 >  2:180884/1‑134 (MQ=255)
                                                                                gCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGtct                                                 <  5:337242/135‑1 (MQ=255)
                                                                                 cTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTctct                                               <  1:83101/136‑1 (MQ=255)
                                                                                   tAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCCGTTTTTTTT‑CCTAAAATTAAAGTATGGGGTTGATTGTTCGCCTACCATTCCGGGTAAGTTCATTACTACACCAATTACCAGTGTCtt                                              >  2:384949/1‑135 (MQ=255)
                                                                                   tAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCtt                                              >  3:336006/1‑135 (MQ=255)
                                                                                   tAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCtt                                              >  4:98534/1‑135 (MQ=255)
                                                                                   tAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑GTTTTTTTGCCTAAAATTCAAGTAGGCGGTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCtt                                              >  3:11296/1‑135 (MQ=255)
                                                                                   tAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCACATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTAATGACTAAACCAATGACCAGtggctt                                              >  2:146431/1‑130 (MQ=255)
                                                                                     aGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCaa                                           >  2:316469/1‑136 (MQ=255)
                                                                                             tttGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTAGATTGTACGCATCGCATTCCGGTGAAGGTCATGACTACACCAATGACCAGTCTCTTCAAtgtgctcg                                   >  6:324251/1‑132 (MQ=255)
                                                                                              ttGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGa                                  >  5:135232/1‑136 (MQ=255)
                                                                                               tGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCg                                   <  2:297128/134‑1 (MQ=255)
                                                                                                  tAAAAGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTc                              <  8:264611/136‑1 (MQ=255)
                                                                                                      aGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGAcc                                                      <  7:264127/108‑1 (MQ=255)
                                                                                                      aGGTGGATATTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGAcc                                                      >  8:264127/1‑108 (MQ=255)
                                                                                                             tatTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTg                   <  5:323241/136‑1 (MQ=255)
                                                                                                             tatTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTg                   <  4:177907/136‑1 (MQ=255)
                                                                                                              atTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGtcttct                    >  1:60472/1‑134 (MQ=255)
                                                                                                              atTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCt                    >  2:221527/1‑134 (MQ=255)
                                                                                                              atTTGGCGCCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCt                    >  8:196883/1‑134 (MQ=255)
                                                                                                                     gcCCATTGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTGAGCGGAAc           <  1:174055/136‑1 (MQ=255)
                                                                                                                           tGGGCGCC‑TTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTGAGCGGAACGAAGcc     >  5:160832/1‑136 (MQ=255)
                                                                                                                              gcgcCTTTTTTTTT‑CCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTGAGCGGAACGAAGCCAGc  <  3:324168/136‑1 (MQ=255)
                                                                                                                                   |                                                                                                                                   
TTCTGTAATTCGCTAACTGGGCCAGTTATCCATTGGCGGGTCCTGTTAGTAAAACGAGCATTACGCATTCACCTTGAGTGGCTTAAGTGCTCCTTTGGTAAAAGGTGGATATTTGGCGCCCATTGGGCGCCTTTTTTTTTGCCTAAAATTCAAGTAGGCGTTCGATTGTACGCATCGCATGCCGGTGAAGTTCATGACTACACCAATGACCAGTCTCTTCAATGTGAGCGACCTCGCCGTCATCTGAGCGGAACGAAGCCAGC  >  ACB143/44162‑44424

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑