Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	4,264,031	A→T	intergenic (‑232/‑22)	uvrA ← / → ssb1	excinuclease ABC subunit UvrA/single‑stranded DNA‑binding protein SSB1

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	4,264,031	0	A	T	97.8%	184.6 / ‑3.3	45	intergenic (‑232/‑22)	uvrA/ssb1	excinuclease ABC subunit UvrA/single‑stranded DNA‑binding protein SSB1
Reads supporting (aligned to +/- strand):  ref base A (1/0);  new base T (24/20);  total (25/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.04e-01

TATTGGAATGCATTACCCGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGATTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGGTGGCGCAGTTGCCAACATTACGCTGGCTACTTCC  >  NZ_CP009273/4263901‑4264166                                                                                                                                   |                                                                                                                                        tATTGGAATGCATTACCCGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGACCGtttttttt                                                                                                                                  >  1:441111/1‑138 (MQ=255) tATTGGAATGCATTACCCGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGtttttttt                                                                                                                                  >  2:138015/1‑138 (MQ=255)   ttGGAATGCATTACCCGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCa                                                                                                                                <  1:262932/138‑1 (MQ=255)      gAATGCATTACCCGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAg                                                                                                                               >  2:315630/1‑136 (MQ=255)           cATTACCCGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAg                                                                                                                               >  2:309054/1‑131 (MQ=255)           cATTACCCGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAg                                                                                                                               <  1:309054/131‑1 (MQ=255)             ttACCCGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGaa                                                                                                                     >  2:83068/1‑139 (MQ=255)                         ttgtGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCcagca                                                                                                          <  1:285497/138‑1 (MQ=255)                                      tCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATg                                                                                                                 >  1:438020/1‑118 (MQ=255)                                      tCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATg                                                                                                                 <  2:438020/118‑1 (MQ=255)                                      tCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAg                                                                                            >  1:298176/1‑139 (MQ=255)                                      tCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAg                                                                                            >  1:3834/1‑139 (MQ=255)                                            cAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTAtt                                                                                      <  1:83068/139‑1 (MQ=255)                                            cAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTAtt                                                                                      <  2:390256/139‑1 (MQ=255)                                               gtttgtttCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATtctc                                                                                   >  2:171482/1‑139 (MQ=255)                                                        ccGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAAt                                                                          <  1:318427/139‑1 (MQ=255)                                                        ccGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAAt                                                                          <  1:171482/139‑1 (MQ=255)                                                              ccGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGt                                                                    <  2:406363/139‑1 (MQ=255)                                                                             aGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTa                                                     >  1:341066/1‑139 (MQ=255)                                                                             aGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTa                                                     >  1:422662/1‑139 (MQ=255)                                                                               tAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTa                                                     >  1:33561/1‑137 (MQ=255)                                                                               tAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTa                                                     <  2:33561/137‑1 (MQ=255)                                                                                   aGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTAc                                               <  2:422662/139‑1 (MQ=255)                                                                                    gcgcTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCgg                                                          >  2:110448/1‑127 (MQ=255)                                                                                    gcgcTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCgg                                                          <  1:110448/127‑1 (MQ=255)                                                                                       cTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGc                                           >  1:363241/1‑139 (MQ=255)                                                                                       cTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGc                                           >  1:315964/1‑139 (MQ=255)                                                                                       cTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGc                                           >  2:28378/1‑139 (MQ=255)                                                                                         aTTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTAc                                               <  2:196484/133‑1 (MQ=255)                                                                                         aTTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTAc                                               >  1:196484/1‑133 (MQ=255)                                                                                                    tACAATCGCGCGTTTACACTTATTCAGAACGATTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGGTGgcg                               >  2:149991/1‑138 (MQ=255)                                                                                                      cAATCGCGCGTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGGTGGCGCa                             <  2:3834/138‑1 (MQ=255)                                                                                                           gcgcgTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGGTGGCGCAGTTGc                        <  1:80707/138‑1 (MQ=255)                                                                                                           gcgcgTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGGTGGCGCAGTTGc                        <  2:441111/138‑1 (MQ=255)                                                                                                           gcgcgTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGGTGGCGCAGTTGc                        <  1:28378/138‑1 (MQ=255)                                                                                                            cgcgTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATc                                                                         >  1:164787/1‑88 (MQ=255)                                                                                                            cgcgTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATc                                                                         <  2:164787/88‑1 (MQ=255)                                                                                                            cgcgTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGGTGGCGCAGTTGcc                       >  2:257436/1‑138 (MQ=255)                                                                                                            cgcgTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGGTGGCGCAGTTGcc                       >  2:25113/1‑138 (MQ=255)                                                                                                            cgcgTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGGTGGCGCAGTTGcc                       >  2:89031/1‑138 (MQ=255)                                                                                                              cgTTTACACTTATTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGGTGGCGCAGTTGCCaa                     >  1:432006/1‑138 (MQ=255)                                                                                                                         aTTCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGGTGGCGCAGTTGCCAACATTACGCTGGc         >  1:348462/1‑139 (MQ=255)                                                                                                                          ttCAGAACGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGGTGGCGCAGTTGCCAACATTACGCTGGc         >  1:35044/1‑138 (MQ=255)                                                                                                                               aaCGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGGTGGCGCAGTTGCCAACATTACg              >  2:402272/1‑128 (MQ=255)                                                                                                                               aaCGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGGTGGCGCAGTTGCCAACATTACg              <  1:402272/128‑1 (MQ=255)                                                                                                                               aaCGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGGTGGCGCAGTTGCCAACATTAAGCTGGCTACTTc   >  1:435507/1‑139 (MQ=255)                                                                                                                                aCGTTTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGGTGGCGCAGTTGCCAACATTACGCTGGCTACTTcc  <  1:315630/139‑1 (MQ=255)                                                                                                                                   |                                                                                                                                        TATTGGAATGCATTACCCGGAGTGTTGTGTAACAATGTCTGGCCAGGTTTGTTTCCCGGAACCGAGGTCACAACATAGTAAAAGCGCTATTGGTAATGGTACAATCGCGCGTTTACACTTATTCAGAACGATTTTTTTCAGGAGACACGAACATGGCCAGCAGAGGCGTAAACAAGGTTATTCTCGTTGGTAATCTGGGTCAGGACCCGGAAGTACGCTACATGCCAAATGGTGGCGCAGTTGCCAACATTACGCTGGCTACTTCC  >  NZ_CP009273/4263901‑4264166

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑