Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,500,043 C→T pseudogene (492/942 nt) yjgX ← pseudogene fragment

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,500,0430CT97.2% 107.8 / ‑6.2 36pseudogene (492/942 nt)yjgXpseudogene fragment
Reads supporting (aligned to +/- strand):  ref base C (0/0);  major base T (15/20);  minor base A (1/0);  total (16/20)
Fisher's exact test for biased strand distribution p-value = 4.44e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AGCATGGCGAAATGACGTGAGTACCGGCGAAGGATACCATCAAGCTGGCCAAGAAAGTTATCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGCTAGGAGTTAAGGCTGTCACACGGATTTGGATGAGAACCCATCATGTGCAGGAAAATTATCTTCGGAGAGGATGTATCCGCCAGCGCACGTTCTGTTTCCTGTAACAACAGTTTGTCATCTGTTTTACGGGAAG  >  NC_000913/4499915‑4500176
                                                                                                                                |                                                                                                                                     
aGCATGGCGAAATGACGTGAGTACCGGCGAAGGATACCATCAAGCTGGCCAAGAAAGTTATCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTaa                                                                                                                             <  1:301495/139‑1 (MQ=255)
 gCATGGCGAAATGACGTGAGTACCGGCGAAGGATACCATCAAGCTGGCCAAGAAAGTTATCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAg                                                                                                                            <  1:825894/139‑1 (MQ=255)
     ggCGAAATGACGTGAGTACCGGCGAAGGATACCATCAAGCTGGCCAAGAAAGTTATCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTg                                                                                                                        >  2:403894/1‑139 (MQ=255)
     ggCGAAATGACGTGAGTACCGGCGAAGGATACCATCAAGCTGGCCAAGAAAGTTATCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTg                                                                                                                        >  2:190762/1‑139 (MQ=255)
         aaaTGACGTGAGTACCGGCGAAGGATACCATCAAGCTGGCCAAGAAAGTTATCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTtac                                                                                                                    <  1:190762/139‑1 (MQ=255)
         aaaTGACGTGAGTACCGGCGAAGGATACCATCAAGCTGGCCAAGAAAGTTATCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTtac                                                                                                                    <  2:747838/139‑1 (MQ=255)
          aaTGACGTGAGTACCGGCGAAGGATACCATCAAGCTGGCCAAGAAAGTTATCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTtaca                                                                                                                   <  1:454953/139‑1 (MQ=255)
                gTGAGTACCGGCGAAGGATACCATCAAGCTGGCCAAGAAAGTTATCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACACGGAtt                                                                                                             <  1:413648/139‑1 (MQ=255)
                        cGGCGAAGGATACCATCAAGCTGGCCAAGAAAGTTATCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAgg                                                                                                                           >  2:292029/1‑117 (MQ=255)
                        cGGCGAAGGATACCATCAAGCTGGCCAAGAAAGTTATCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAgg                                                                                                                           <  1:292029/117‑1 (MQ=255)
                           tgAAGGATACCATCAAGCTGGCCAAGAAAGTTATCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACACGGATTCGGATGAGAAc                                                                                                  <  2:382224/138‑1 (MQ=255)
                             aaGGATACCATCAAGCTGGCCAAGAAAGTTAACCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTa                                                                                                                                     >  2:198761/1‑102 (MQ=255)
                                gATACCATCAAGCTGGTCAAGAAAGTTATCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACACGGATTTGGATGAGAACCcatc                                                                                             <  2:396641/139‑1 (MQ=255)
                                        cAAGCTGGCCAAGAAAGTTATCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACACGGATTTGGATGAGAACCCATCATGTGCAg                                                                                     >  1:370856/1‑139 (MQ=255)
                                          aGCTGGCCAAGAAAGTTATCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACACGGATTTGGATgag                                                                                                     <  2:631894/121‑1 (MQ=255)
                                          aGCTGGCCAAGAAAGTTATCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACACGGATTTGGATgag                                                                                                     >  1:631894/1‑121 (MQ=255)
                                               gCCAAGAAAGTTATCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTa                                                                                                                                     <  1:946406/84‑1 (MQ=255)
                                                            tCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACACGGATTTGGATGAGAACCCATCATGTGCAGGAAAATTATCTTCGGAGAgg                                                                 <  1:816557/139‑1 (MQ=255)
                                                            tCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACACGGATTTGGATGAGAACCCATCATGTGCAGGAAAATTATCTTCGGAGAgg                                                                 <  2:370856/139‑1 (MQ=255)
                                                                           cTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACACGGATTTGGATGAGAACCCATCATGTGCAGGAAAATTATCtt                                                                         <  2:104655/116‑1 (MQ=255)
                                                                           cTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACACGGATTTGGATGAGAACCCATCATGTGCAGGAAAATTATCtt                                                                         >  1:104655/1‑116 (MQ=255)
                                                                           cTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTACTCGGATAGGAGTTAAGGCTGTTACACGGATTTGGATGAGAACCCATCATGTGCAGGAAAATTATCTTCGGAGAGGATGTATCCGCCAgcg                                                  >  1:317486/1‑139 (MQ=255)
                                                                            tGGCGAGGTAACAGGCAATTTCTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTCATACGGATTTGGATGAGAACCCATCATGTGCAGGAAAATTATCTTCGGAGAGGATGTATCCGCCAgcgc                                                 <  2:647767/139‑1 (MQ=255)
                                                                             ggCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTa                                                                                                                                     >  2:98552/1‑54 (MQ=255)
                                                                                 aGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACACGGATTTGGATGAGAACCCATCATGTGCAGGAAAATTATCTTCGGAGAGGATGTATCCGCCAGCGCACGtt                                            <  2:619772/139‑1 (MQ=255)
                                                                                   gTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACACGGATTTGGATGAGAACCCATCATGTGCAGGAAAATTATCTTCgg                                                                      <  1:758351/111‑1 (MQ=255)
                                                                                   gTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACACGGATTTGGATGAGAACCCATCATGTGCAGGAAAATTATCTTCgg                                                                      >  2:758351/1‑111 (MQ=255)
                                                                                   gTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACACGGATTTGGATGAGAACCCATCATGTGCAGGAAAATTATCTTCGGAGAGGATGTATCCGCCAGCGCACGTTCt                                          >  2:23977/1‑139 (MQ=255)
                                                                                             aTTTTTCGGGGATACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACACGGATTTGGATGAGAACCCATCATGTGCAGGAAAATTATCTTCGGAGAGGATGTATCCGCCAGCGCACGTTCTGTTTCCTGTa                                >  2:380368/1‑139 (MQ=255)
                                                                                              tttttCGGGGATACTGCTCCAGGTAATTACACTGTGAGGGGTTAAGGCTGTGACAGGGATGTAGATGAGAACCCATCATGTGCAGGAAAATTATCTTCGGAGAGGATGTATCCGCCAGCGGACGCTCTGTTTCCTTTaa                               <  2:317486/139‑1 (MQ=255)
                                                                                                         tACTGCTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACATGGATTTGGATGAGAACCCATCATGTGCAGGAAAATTATCTTCGGAGAGGATGTATCCGCCAGCGCACGTTCTGTTTCCTGTAACAACAGTTTGt                    <  2:910552/139‑1 (MQ=255)
                                                                                                              cTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACACGGATTTGGATGAGAACCCATCATGTGCAGGAAAATTATCTTCGGAGAGGATGTATCCGCCAGCGCACGTTCTGTTTCCTGTAACAACAGTTTGTCATCt               >  2:44968/1‑139 (MQ=255)
                                                                                                              cTCCAGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACACGGATTTGGATGAGAACCCATCATGTGCAGGAAAATT‑TCTTCGGAGAGGATGTATCCGCCAGCGCACGTTCTGTTTCCTGTAACAACAGTTTGTCATCTg              >  2:368535/1‑139 (MQ=255)
                                                                                                                 cAGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACACGGATTTGGATGAGAACCCATCATGTGCAGGAAAATTATCTTCGGAGAGGATGTATCCGCCAGCGCACGTTCTGTTTCCTGTAACAACAGTTTGTCATCTGtt            >  1:858298/1‑139 (MQ=255)
                                                                                                                  aGGTAATTATTCGGTTAGGAGTTAAGGCTGTTACACGGATTTGGATGAGAACCCATCATGTGCAGGAAAATTATCTTCGGAGAGGATGTATCCGCCAGCGCACGTTCTGTTTCCTGTAACAACAGTTTGTCATCTGttt           >  2:456228/1‑139 (MQ=255)
                                                                                                                           ttCGGTTAGGAGTTAAGGCTGTTACACGGATTTGGATGAGAACCCATCATGTGCAGGAAAATTATCTTCGGAGAGGATGTATCCGCCAGCGCACGTTCTGTTTCCTGTAACAACAGTTTGTCATCTGTTTTACGGgaag  <  1:380368/139‑1 (MQ=255)
                                                                                                                                |                                                                                                                                     
AGCATGGCGAAATGACGTGAGTACCGGCGAAGGATACCATCAAGCTGGCCAAGAAAGTTATCCAGTTTACTGATGCTGGCGAGGTAACAGGCAATTTTTCGGGGATACTGCTCCAGGTAATTATTCGGCTAGGAGTTAAGGCTGTCACACGGATTTGGATGAGAACCCATCATGTGCAGGAAAATTATCTTCGGAGAGGATGTATCCGCCAGCGCACGTTCTGTTTCCTGTAACAACAGTTTGTCATCTGTTTTACGGGAAG  >  NC_000913/4499915‑4500176

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑