Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 1,672,327 A→G 16.3% V222V (GTT→GTC rpoD ← DNA‑directed RNA polymerase sigma subunit RpoD

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,672,3270AG16.3% 55.2 / 5.1 26V222V (GTT→GTCrpoDDNA‑directed RNA polymerase sigma subunit RpoD
Reads supporting (aligned to +/- strand):  ref base A (10/11);  new base G (2/2);  total (12/14)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.85e-01

TTGGTGTTTCTAATGAAACAGGTTCTTGCGCAATTTTTAAAATTTCACGAACTTTTTCTGCTGGTAAATCCATTTCTTCACCAATTTCTTCTGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGAACACGAATTAATTTATTAATTGTTTCTACCATATGCACAGGGATACGAATCGTACGTGCTTGGTCAGCAATTGCACGAGTGATTGCTTGTCTAATCCACCATGTTGCATATGTTGAAAACTTAAA  >  CP000730/1672194‑1672452
                                                                                                                                     |                                                                                                                             
ttGGTGTTTCTAATGAAACAGGTTCTTGCGCAATTTTTAAAATTTCACGAACTTTTTCTGCTGGTAAATCCATTTCTTCACCAATTTCTTCTGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGAACACGaa                                                                                                                        <  2:155399/141‑1 (MQ=255)
 tGGTGTTTCTAATGAAACAGGTTCTTGCGCAATTTTTAAAATTTCACGAACTTTTTCTGCTGGTAAATCCATTTCTTCACCAATTTCTTCTGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGAACACGaat                                                                                                                       <  2:121178/141‑1 (MQ=255)
 tGGTGTTTCTAATGAAACAGGTTCTTGCGCAATTTTTAAAATTTCACGAACTTTTTCTGCTGGTAAATCCATTTCTTCACCAATTTCTTCTGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGAACACGaat                                                                                                                       <  2:452794/141‑1 (MQ=255)
      tttCTAATGAAACAGGTTCTTGCGCAATTTTTAAAATTTCACGAACTTTTTCTGCTGGTAAATCCATTTCTTCACCAATTTCTTCTGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGGACACGaattaatt                                                                                                                  >  1:455956/1‑141 (MQ=255)
      tttCTAATGAAACAGGTTCTTGCGCAATTTTTAAAATTTCACGAACTTTTTCTGCTGGTAAATCCATTTCTTCACCAATTTCTTCTGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGGACACGaattaatt                                                                                                                  >  2:311205/1‑141 (MQ=255)
           aaTGAAACAGGTTCTTGCGCAATTTTTTTTTTTTTTTTAACTTTTACCGCTGGTAAATCCATTTCTTCTCCAATTTCTTCTGGTGCTGGATCTCGCCCTAAGTCCTGTTATAATTAACGTTGACCACGAATTAATttatta                                                                                                             >  2:416473/1‑141 (MQ=255)
             tGAAACAGGTTCTTGCGCAATTTTTAAAATTTCACGAACTTTTTCTGCTGGTAAATCCATTTCTTCACCAATTTCTTCTGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGAACACGAATTAATTTATTAAt                                                                                                           <  1:378328/141‑1 (MQ=255)
             tGAAACAGGTTCTTGCGCAATTTTTAAAATTTCACGAACTTTTTCTGCTGGTAAATCCATTTCTTCACCAATTTCTTCTGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGAACACGAATTAATTTATTAAt                                                                                                           <  1:378393/141‑1 (MQ=255)
             tGAAACAGGTTCTTGCGCAATTTTTAAAATTTCACGAACTTTTTCAGCTGGTAAATCCATGACTTCGACGATTTCTTCTGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGAACACGAATTAATTTATTAAt                                                                                                           <  1:435576/141‑1 (MQ=255)
                  cAGGTTCTTGCGCAATTTTTAAAATTTCACGAACTTTTTCTGCTGGTAAATCCATTTCTTCACCAATTTCTTCTGGTGCTGGATCTAGACCTAAGTCCTGTAATAATTGACGTTGAACACGAATTAATTTATTAATTGttt                                                                                                      >  2:365321/1‑141 (MQ=255)
                       tCTTGCGCAATTTTTAAAATTTCACGAACTTTTTCTGCTGGTAAATCCATTTCTTCACCAATTTCTTCTGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGAACACGAATTAATTTATTAATTGTTTCTAcc                                                                                                 >  1:51077/1‑141 (MQ=255)
                         ttGCGCAATTTTTAAAATTTCACGAACTTTTTCTGCTGGTAAATCCATTTCTTCACCAATTTCTTCTGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGAACACGAATTAATTTATTAATTGTTTCTACCat                                                                                               <  1:433322/141‑1 (MQ=255)
                         ttGCGCAATTTTTAAAATTTCACGAACTTTTTCTGCTGGTAAATCCATTTCTTCACCAATTTCTTCTGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGAACACGAATTAATTTATTAATTGTTTCTACCat                                                                                               <  1:171745/141‑1 (MQ=255)
                                     tAAAATTTCACGAACTTTGTCTGCTGGTAAATCCATTTCTTCACCAATTTCTTCTTGTGCTGGAGCTCGACCTAAGTCCTGTAATAATTGACGTTGAACACGAATTAATTTATTAATTGGTTCTACCATCTGCACAggatt                                                                                   >  1:26503/1‑138 (MQ=255)
                                                gAACTTTTTCTGCTGGTAAATCCATTTCTTCACCAATTTCTTCTGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGAACACGAATTAATTTATTAATTGTTTCTACCATATGCACAGGGATACGAATCGTAc                                                                        <  2:261195/141‑1 (MQ=255)
                                                gAACTTTTTCTGCTGGTAAATCCATTTCTTCACCAATTTCTTCTGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGAACACGAATTAATTTATTAATTGTTTCTACCATATGCACAGGGATACGAATCGTAc                                                                        >  2:239974/1‑141 (MQ=255)
                                                    tttttCTGCTGGTAAATCCATTTCTTCACCAATTTCTTCTGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGAACACGAATTAATTTATTAATTGTTTCTACCATATGCACAGGGATACGAATCGTACGTGc                                                                    <  2:418977/141‑1 (MQ=255)
                                                                            ttcACCAATTTCTTCTGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGAACACGAATTAATTTATTAATTGTTTCTACCATATGCACAGGGATACGAATCGTACGTGCTTGGTCAGCAATTGCACGAGTGAt                                            >  1:349447/1‑141 (MQ=255)
                                                                                        ttctGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGAACACGAATTAATTTATTAATTGTTTCTACCATATGCACAGGGATACGAATCGTACGTGCTTGGTCAGCAATTGCACGAGTGATTGCTTGTCTAAt                                >  1:132313/1‑141 (MQ=255)
                                                                                          ctGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGAACACGAATTAATTTATTAATTGTTTCTACCATATGCACAGGGATACGAATCGTACGTGCTTGGTCAGCAATTGCACGAGTGATTGCTTGTCTAATcc                              >  1:144811/1‑141 (MQ=255)
                                                                                          ctGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGAACACGAATTAATTTATTAATTGTTTCTACCATATGCACAGGGATACGAATCGTACGTGCTTGGTCAGCAATTGCACGAGTGATTGCTTGTCTAATcc                              >  1:200094/1‑141 (MQ=255)
                                                                                                  tgttctcGACCCTAGTCCTGTAGTAATTTACGTTGTTCACGAATTAATTTCTCAATTGTTTCTACCATATGCCCGGGGATACGATTCGTACGGGCTTTGTCAGCGATTGCACGAGTGTTTGCATGTCTAATCCTCCATGtt                      <  2:26503/138‑1 (MQ=255)
                                                                                                      ctcGACCTAAGTCCTGTAATAATTGACGTTGAACACGAATTAATTTATTAATTGTTTCTACCATATGCACAGGGATACGAATCGTACGTGCTTGGTCAGCAATTGCACGAGTGATTGCTTGTCTAATCCACCATGTTGCat                  >  2:375559/1‑141 (MQ=255)
                                                                                                          aCCTAAGTCCTGTAATAATTGACGTTGAACACGAATTAATTTATTAATTGTTTCTACCATATGCACAGGGATACGAATCGTACGTGCTTGGTCAGCAATTGCACGAGTGATTGCTTGTCTAATCCACCATGTTGCATATGt              <  1:85638/141‑1 (MQ=255)
                                                                                                                      taataaTTGACGTTGGACACGAATTAATTTATTAATTGTTTCTACCATATGCACAGGGATACGAATCGTACGTGCTTGGTCAGCAATTGCACGAGTGATTGCTTGTCTAATCCACCATGTTGCATATGTTGAAAACTTaaa  <  1:311205/141‑1 (MQ=255)
                                                                                                                      taataaTTGACGTTGGACACGAATTAATTTATTAATTGTTTCTACCATATGCACAGGGATACGAATCGTACGTGCTTGGTCAGCAATTGCACGAGTGATTGCTTGTCTAATCCACCATGTTGCATATGTTGAAAACTTaaa  <  2:455956/141‑1 (MQ=255)
                                                                                                                                     |                                                                                                                             
TTGGTGTTTCTAATGAAACAGGTTCTTGCGCAATTTTTAAAATTTCACGAACTTTTTCTGCTGGTAAATCCATTTCTTCACCAATTTCTTCTGGTGCTGGATCTCGACCTAAGTCCTGTAATAATTGACGTTGAACACGAATTAATTTATTAATTGTTTCTACCATATGCACAGGGATACGAATCGTACGTGCTTGGTCAGCAATTGCACGAGTGATTGCTTGTCTAATCCACCATGTTGCATATGTTGAAAACTTAAA  >  CP000730/1672194‑1672452

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: