Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,881,212	C→T	A311T (GCG→ACG)	casC ←	type I‑E CRISPR system Cascade subunit CasC

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,881,212	0	C	T	97.1%	92.7 / ‑3.8	34	A311T (GCG→ACG)	casC	type I‑E CRISPR system Cascade subunit CasC
Reads supporting (aligned to +/- strand):  ref base C (0/1);  new base T (15/18);  total (15/19)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.58e-01

CGCGTTCCTTCAAA‑GGTCGGCTGCCCCCAGGCTTGCATTGGCCCAGCAAGCCGCAAGATCAAATAAGATCTCATGTTCACGCCTCGCCATTATTACGAACCCAGGATTTTAACTGTTCTAAAGTAGGCATTTGTTTAACTTGAGCAGTAATTGGGTCTACATCAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGCCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAAAGCGGCATAAGTACGCTGTTTTGCTCCAGGGACCTCTGTTGCCAGCATATGAACAACATGGGTTGCAATTTCCAGAGCCTGCTCCCTGGAGGCACCACCTAAATTTTCCTGAAGTTGAGCGAGGTTAATG  >  NC_000913/2880975‑2881456                                                                                                                                                                                                                                               |                                                                                                                                                                                                                                                     cgcgTTCCTTCAAG‑GGTCGGCTGCCCCCAGGCTTGCATGGGCCCAGCAAGCCGCAAGATCAAATAAGATCTCATGTTCACGCCTCGCCATTATTACGAACCCAGGATTTTAACTGTTCTAAAGTAGGCATTTGTTTAACTTGAGCAGTAATTGGGTCTACATCAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGTCAACGCGATCTCAATATTGATTAAACGTCTGTATAGACGGt                                                                                                                                                                                                                                         <  1:531629/251‑1 (MQ=255)   cgTTCCT‑CAAATGGTCGGTGGCCCCCAGGCTTGCATTGGCCCAGCAAGCCGCAAGATCAAAACAGATCTCATGTGCACGTCTCGCCAGTATTACGAACCCAGGATTTTAACTGTTCTAAAGTAGGCATTTGTTTACCGTGAGCAGTAATTGTGTCTACATCAGATAAGCTGAATTGCGCAGCAGCTTCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACgggtg                                                                                                                                                                                                                                       <  2:75507/251‑4 (MQ=255)                ggTCGGCTTCCCACAGGCTTGAATTGGAACAGCAAGCCGCAAGATCAAATAAGATCTCATGTTCACGACTCGCCATTATTCAGACCCCAGGATTTTAACTGTTCTAAAGTAGGCATTTGTTTAACTTGAGCAGTAATTGGGTCTACATCAGATAAGCTGAATTGCGCAGCAGCTCCGTTCCGACCATATCCATTGGAAACGCAATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAACCATc                                                                                                                                                                                                                           >  2:680757/1‑251 (MQ=255)                         cccccAGGCTTGCATTGGCCCAGCAAGCCGCAAGATCAAATAAGATCTCATGTTCACGCCTCGCCATTATTACGAACCCAGGATTTTAACTGTTCTAAAGTAGGCATTTGTTTAACTTGAGCAGTAATTGGGTCTACATCAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCttt                                                                                                                                                                                                                  <  1:191738/251‑1 (MQ=255)                               ggCTTGCAGTGGCCCAGCAAGCCGCAAGATCAAATAAGATCTCATGTTCACGCCTCGCCATTATTACGAACCCAGGATTTTAACTGGTCTAAAGTAGGCATTTGTTTAACTTGAGCAGTAATTGGGTCTACATCAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGc                                                                                                                                                                                                            <  1:313289/251‑1 (MQ=255)                                                      gCAAGATCAAAAAAGATCTCATGTTCACGCCTCGCCATTATTACGAACCCAGGATTTTAACTGTTCTAAAGTAGGCATTTGTTTAACTTGAGCAGTAATTGGGTCTACATCAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAg                                                                                                                                                                                     <  1:821/251‑1 (MQ=255)                                                          gATCAAATAAGATCTCATGTTCACGCCTCGCCATTATTACGAACCCAGGATTTTAACTGTTCTAAAGTAGGCATTTGTTTAACTTGAGCAGTAATTGGGTCTACATCAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAg                                                                                                                                                                                 <  1:74709/251‑1 (MQ=255)                                                                  aaGATCTCATGTTCACGCCTCGCCATTATTACGAACCCAGGATTTTAACTGTTCTAAAGTAGGCATTTGTTTAACTTGAGCAGTAATTGGGTCTACATCAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCatat                                                                                                                                                                         <  1:55750/251‑1 (MQ=255)                                                                                          attattACGAACCCAGGATTTTAACTGTTCTAAAGTAGGCATTTGTTTAACTTGAGCAGTAATTGGGTCTACATCAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAAGTAACCAGTACCatat                                                                                                                                                 <  2:82307/251‑1 (MQ=255)                                                                                                        aGGATTTTAACTGTTCTAAAGTAGGCATTTGTTTAACTTGAGCAGTAATTGGGTCTACATCAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCCCAGGGttcaa                                                                                                                                    >  2:26405/1‑247 (MQ=255)                                                                                                           aTTTTAACTGTTCTAAAGTAGGCATTTGTTTAACTTGAGCAGTAATTGGGTCTACATCAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAAAGCg                                                                                                                                >  1:129190/1‑251 (MQ=255)                                                                                                                aaCTGTTCTAAAGTAGGCATTTGTTTAACTTGAGCAGTAATCGGGTCTTCATCAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTGCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAAAGCGGCATa                                                                                                                           <  1:21073/251‑1 (MQ=255)                                                                                                                   tGTTCTAAAGTAGGCATTTGATTAACTTGAGCAGTAATTGGGTCTACATCAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAAAGCGGCATAAGt                                                                                                                        >  1:276030/1‑251 (MQ=255)                                                                                                                             tAGGCATTTGTTTAACTTGAGCAGTAATTGGGTCTACATCAGATAAGCTGAGTTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGAATAGACGCTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGCAATTCACCATTACCATATCCGCAGGATTAAAAGCGGCATAAGCACGCTGtttt                                                                                                              >  2:463471/1‑251 (MQ=255)                                                                                                                             tAGGCATTTGTTTAACTTGAGCAGTAATTGGGTCTACATCAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAAAGCGGCATAAGTACGCTGtttt                                                                                                              >  1:295917/1‑251 (MQ=255)                                                                                                                              aGGCATTTGTTTAACTTGAGCAGTAATTGGGTCTACATCAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACTGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAAAGCGGCATAAGTACGCTGtgtt                                                                                                              <  1:247202/250‑4 (MQ=255)                                                                                                                              aGGCATTTGTTTAACGTGAGCAGTAATTTGGTCTACATCAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAAAGCGGCATAAGTACGCTGtttt                                                                                                              <  1:247210/250‑1 (MQ=255)                                                                                                                                      gTTTAACTTGAGCAGTAATTGGGTCTACATCAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCACAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAAAGCGGCATAAGTACGCTGTTTTGCTCCAggg                                                                                                     >  1:283004/1‑251 (MQ=255)                                                                                                                                         tAACTTGAGCAGTAAGTGGGTCTACATCAGATAAGCTGAATTGCGCAGCCGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGACAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAACGCGGCATAAGAACGCTGTTTTGATCCAGGGAcc                                                                                                  >  2:351394/1‑251 (MQ=255)                                                                                                                                                           ggTCTACATCAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCTATCCCAATATTGATTAAACGCCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAAAGCGGCATAAGTACGCTGTTTTGCTCCAGGGACCTCTGATGCCAGCATATGa                                                                                <  1:340163/251‑1 (MQ=255)                                                                                                                                                                    cAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTAc                                                                                                                                                      >  1:607709/1‑172 (MQ=255)                                                                                                                                                                    cAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATGTGCCATAGAAAGTGGCATATCTGAGAAATTAACCATTAc                                                                                                                                                      <  2:607709/172‑1 (MQ=255)                                                                                                                                                                         aaGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGtt                                                                                                                                       >  2:176079/1‑182 (MQ=255)                                                                                                                                                                         aaGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGtt                                                                                                                                       <  1:176079/182‑1 (MQ=255)                                                                                                                                                                              gAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAAAGCGGCATAAGTACGCTGTTTTGCTCCAGGGACCTCTGTTGCCa                                                                                        <  1:661637/224‑1 (MQ=255)                                                                                                                                                                              gAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAAAGCGGCATAAGTACGCTGTTTTGCTCCAGGGACCTCTGTTGCCa                                                                                        >  2:661637/1‑224 (MQ=255)                                                                                                                                                                               aaTTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAAAGCGGCATAAGTACGCTGTTTTGCt                                                                                                           <  2:541511/204‑1 (MQ=255)                                                                                                                                                                               aaTTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAAAGCGGCATAAGTACGCTGTTTTGCt                                                                                                           >  1:541511/1‑204 (MQ=255)                                                                                                                                                                                            cTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAAAGCGGCATAAGTACGCTGTTTTGCTCCAGGGACCTCTGTTGCCAGCATATGAACAACATGGGTTGCAATTTCCAGCGCCTGCTcc                                               >  2:104153/1‑251 (MQ=255)                                                                                                                                                                                              ccGTTCATACCACATCCATTGGCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTCCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAAAGCGGCATAAGTACGCTGTTTTGCGCCAGGGACCTCTGTTGCCAGCATATGAACAACATGGGTTGCAATTTCCAGAGCCTGCTCCCt                                             <  2:585514/251‑1 (MQ=255)                                                                                                                                                                                                 ttCAGACCATATCCATTGTCAACGCGATCCCAATATTGATTAAACGTCTGTATAGACGGGTGCAAAAAGCCATCTTTCGATTTAACCGCATTTTCAAAAACATTTGACATAGAAAGTGGCATATCTGAGAACTTAACCATTACCATATCCGCAGGGTTAAAAGCGTCATAAGTACGCTGTTTTGCTCACGGGACCTCTGTTGCCAGCATATGAACAACATGGGTTGCAATTTCCAGAGCCTTCTCCCTgg                                           >  2:608680/1‑250 (MQ=255)                                                                                                                                                                                                                         cgATCCCAATATTGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAAAGCGGCATAAGTACGCTGTTTTGCTCCAGGGACCTCTGTTGCCAGCATATGAACAACATGGGTTGCAATTTCCAGAGCCTGCTCCCTGGAGGCAACACCTAAATTTTCCTGa                    >  1:77918/1‑249 (MQ=255)                                                                                                                                                                                                                                     tGATTAAACGTCTGTATAGACGGTTGCAAAAAGCCATCTGTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAAAGCGGCATAAGTACGCTGTTTTGCTCCAGGGACCTCTGTTGCCAGCATATGAACAACATGGGTTGCAATTTCCAGAGCCTGCTCCCTGGAGGCACCACCTAAATTTTCCTGAAGTTGAGCGAGGt       <  2:283004/250‑1 (MQ=255)                                                                                                                                                                                                                                          aaaCGTCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAAAGCGGCATAAGTACGCTGTTTTGCTCCAGGGACCTCTGTTGCCAGCATATGAACAACATGGGTTGCAATTTCCAGAGCCTGCTCCCTGGAGGCACCACCTAAATTTTCCTGAAGTTGAGCGAGGTTAATg  <  1:22776/250‑1 (MQ=255)                                                                                                                                                                                                                                               |                                                                                                                                                                                                                                                     CGCGTTCCTTCAAA‑GGTCGGCTGCCCCCAGGCTTGCATTGGCCCAGCAAGCCGCAAGATCAAATAAGATCTCATGTTCACGCCTCGCCATTATTACGAACCCAGGATTTTAACTGTTCTAAAGTAGGCATTTGTTTAACTTGAGCAGTAATTGGGTCTACATCAGATAAGCTGAATTGCGCAGCAGCTCCGTTCAGACCATATCCATTGGCAACGCGATCCCAATATTGATTAAACGCCTGTATAGACGGTTGCAAAAAGCCATCTTTCGCTTTAACCGCTTTTTCAAAAGCATTTGCCATAGAAAGTGGCATATCGGAGAAATTAACCATTACCATATCCGCAGGGTTAAAAGCGGCATAAGTACGCTGTTTTGCTCCAGGGACCTCTGTTGCCAGCATATGAACAACATGGGTTGCAATTTCCAGAGCCTGCTCCCTGGAGGCACCACCTAAATTTTCCTGAAGTTGAGCGAGGTTAATG  >  NC_000913/2880975‑2881456

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑