Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP009273 1,196,660 G→T 46.1% intergenic (‑172/‑293) xisE ← / → ymfI e14 prophage; putative excisionase/e14 prophage; uncharacterized protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0092731,196,6600GT46.1% 12.5 / 30.9 26intergenic (‑172/‑293)xisE/ymfIe14 prophage; putative excisionase/e14 prophage; uncharacterized protein
Reads supporting (aligned to +/- strand):  ref base G (9/5);  new base T (8/4);  total (17/9)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.36e-01

ACTGCTTAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACACACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGAAGGTCGATTGTCAGCCTCAA  >  CP009273/1196514‑1196802
                                                                                                                                                  |                                                                                                                                              
aCTGCTTAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTa                                                                                                                                             <  2:2021260/150‑1 (MQ=255)
     ttAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCTGTACCAGa                                                                                                                                        >  2:3840220/1‑150 (MQ=255)
      tAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCTGTACCAGaa                                                                                                                                       <  2:2574630/150‑1 (MQ=255)
      tAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCTGTACCAGaa                                                                                                                                       <  2:2574584/150‑1 (MQ=255)
      tAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCTGTACCAGaa                                                                                                                                       <  2:2574583/150‑1 (MQ=255)
          ctcAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTTTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGa                                                                                                                                   >  1:658507/1‑150 (MQ=255)
          ctcAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGa                                                                                                                                   >  1:1899151/1‑150 (MQ=255)
             aGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTa                                                                                                                                >  1:658553/1‑150 (MQ=255)
                    cGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCTGTACCAGAAAGGACTAAGGaaaa                                                                                                                         <  2:1424935/150‑1 (MQ=255)
                       cccTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAATGGCGGTACCAGAAAGGACTAAGGAAAAAAc                                                                                                                      >  1:3711558/1‑150 (MQ=255)
                       cccTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAAc                                                                                                                      >  1:3711559/1‑150 (MQ=255)
                       cccTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCAACCGGGGATACTCATCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAAc                                                                                                                      >  1:3711575/1‑150 (MQ=255)
                       cccTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCAGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCAACCCGGGATACTCTTCTCTGTTTTTTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAAc                                                                                                                      >  1:3711594/1‑150 (MQ=255)
                                          ttCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTaca                                                                                                   <  1:1382766/150‑1 (MQ=255)
                                                                       ggCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGTAAAAAACTGGTACCGCCAAGACTACACACAGCATAAAGTTGTGGTGTCGGGTGcc                                                                      >  2:696595/1‑150 (MQ=255)
                                                                            caGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCTGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACACACAGCATAAAGTTGTGGTGTCGGGTGCCCCCgg                                                                 >  2:2155347/1‑150 (MQ=255)
                                                                                       aTGGGTCGGGTTATTACCCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACACACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGaa                                                      <  2:2471503/150‑1 (MQ=255)
                                                                                                   attaACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACACACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCa                                          <  2:3951699/150‑1 (MQ=255)
                                                                                                               tCCGGGGATACTCTTCTCTGTTTTGTAAAACGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACACACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTa                              <  1:1164992/150‑1 (MQ=255)
                                                                                                                        aCTCTTCTCTGTTTTGTAAAAAGGGCTGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACACACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGaa                     >  2:2845116/1‑150 (MQ=255)
                                                                                                                        aCTCTTCTCTGTTTTGTAAAAAGGGCTGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACACACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGaa                     >  2:2845162/1‑150 (MQ=255)
                                                                                                                        aCTCTTCTCTGTTTTGTAAAAAGGGCTGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACACACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGaa                     >  2:4214233/1‑150 (MQ=255)
                                                                                                                         ctctTCTCTGTTTTGTAAAAAGGGCTGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACACACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGAAg                    >  1:671261/1‑150 (MQ=255)
                                                                                                                               tctGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACACACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGAAGGTCGAt              >  1:3749438/1‑150 (MQ=255)
                                                                                                                                          aaaaGGGCTGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACACACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTACACACCAGGCGGGTGGGTATCCACAGAAGGTCGATTGTCAGCCTCa   >  1:4543593/1‑150 (MQ=255)
                                                                                                                                           aaaGGGCTGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACACACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGAAGGTCGATTGTCAGCCTCaa  >  2:1336695/1‑150 (MQ=255)
                                                                                                                                                  |                                                                                                                                              
ACTGCTTAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACACACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGAAGGTCGATTGTCAGCCTCAA  >  CP009273/1196514‑1196802

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑