Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,878,312	C→T	intergenic (+694/+257)	iap → / ← cas2	alkaline phosphatase isozyme conversion protein/CRISPR‑associated endoribonuclease Cas2

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,878,312	0	C	T	100.0%	175.4 / NA	51	intergenic (+694/+257)	iap/cas2	alkaline phosphatase isozyme conversion protein/CRISPR‑associated endoribonuclease Cas2
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (33/18);  total (33/18)

GGTATGCGCGATTCGCGGTTTATCCCCGCTGGCGCGGGGAACTCGCGACCGCTCAGAAATTCCAGACCCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCCCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTATCGCCGCGCGTCTGCGAAAGCGGTTTATCCCCG  >  NC_000913/2878175‑2878447                                                                                                                                          |                                                                                                                                        ggTATGCGCGATTCGCGGTTTATCCCCGCTGGCGCGGGGAACTCGCGACCGCTCAGAAATTCCAGACCCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCg                                                                                                                                       >  1:391753/1‑140 (MQ=255)       cgcgATTCGCGGTTTATCCCCGCTGGCGCGGGGAACTCGCGACCGCTCAGAAATTCCAGACCCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTAt                                                                                                                                 >  2:908624/1‑140 (MQ=255)       cgcgATTCGCGGTTTATCCCCGCTGGCGCGGGGAACTCGCGACCGCTCAGAAATTCCAGACCCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTAt                                                                                                                                 >  1:81705/1‑140 (MQ=255)           aTTCGCGGTTTATCCCCGCTGGCGCGGGGAACTCGCGACCGCTCAGAAATTCCAGACCCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATcccc                                                                                                                             >  2:741188/1‑140 (MQ=255)           aTTCGCGGTTTATCCCCGCTGGCGCGGGGAACTCGCGACCGCTCAGAAATTCCAGACCCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATcccc                                                                                                                             >  1:1346642/1‑140 (MQ=255)           aTTCGCGGTTTATCCCCGCTGGCGCGGGGAACTCGCGACCGCTCAGAAATTCCAGACCCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATcccc                                                                                                                             >  1:1052915/1‑140 (MQ=255)           aTTCGCGGTTTATCCCCGCTGGCGCGGGGAACTCGCGACCGCTCAGAAATTCCAGACCCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATcccc                                                                                                                             >  1:365840/1‑140 (MQ=255)               gcgGTTTATCCCCGCTGGCGCGGGGAACTCGCGACCGCTCAGAAATTCCAGACCCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTg                                                                                                                         <  2:185273/140‑1 (MQ=255)               gcgGTTTATCCCCGCTGGCGCGGGGAACTCGCGACCGCTCAGAAATTCCAGACCCGATCCAAACCGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTg                                                                                                                         <  2:323405/140‑1 (MQ=255)                 ggTTTATCCCCGCTGGCGCGGGGAACTCGCGACCGCTCAGAAATTCCAGACCCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGgc                                                                                                                       <  1:1246590/140‑1 (MQ=255)                             cTGGCGCGGGGAACTCGCGACCGCTCAGAAATTCCAGACCCTATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCa                                                                                                           >  1:1041127/1‑140 (MQ=255)                             cTGGCGCGGGGAACTCGCGACCGCTCAGAAATTCCAGACCCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCa                                                                                                           >  1:932422/1‑140 (MQ=255)                               ggCGCGGGGAACTCGCGACCGCTCAGAAATTCCAGACCCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGc                                                                                                         >  2:559213/1‑140 (MQ=255)                                gcgcGGGGAACTCGCGACCGCTCAGAAATTCCAGACCCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCg                                                                                                        <  1:1164565/140‑1 (MQ=255)                                   cgGGGAACTCGCGACCGCTCAGAAATTCCAGA‑CCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGtt                                                                                                    >  2:1010296/1‑140 (MQ=255)                                         aCTCGCGACCGCTCAGAAATTCCAGACCCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCa                                                                                               <  2:81705/140‑1 (MQ=255)                                         aCTCGCGACCGCTCAGAAATTCCAGACCCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCa                                                                                               <  2:1346642/140‑1 (MQ=255)                                          cTCGCGACCGCTCAGAAATTCCAGACCCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCAt                                                                                              <  1:445343/140‑1 (MQ=255)                                          cTCGCGACCGCTCAGAAATTCCAGACCCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCAt                                                                                              <  1:1163946/140‑1 (MQ=255)                                                  cGCTCAGAAATTCCAGACCCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTg                                                                                      >  2:1262872/1‑140 (MQ=255)                                                                    ccGATCCAAACGGTTTATCCCCGCTGGTGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTAt                                                                    >  1:1273543/1‑140 (MQ=255)                                                                       aTCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATccc                                                                 >  2:430959/1‑140 (MQ=255)                                                                       aTCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATccc                                                                 >  1:742642/1‑140 (MQ=255)                                                                              cGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGgc                                                          <  2:391753/140‑1 (MQ=255)                                                                                 tttATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGcgcg                                                       >  2:789998/1‑140 (MQ=255)                                                                                  ttATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCgg                                                      >  1:1010012/1‑140 (MQ=255)                                                                                   tATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCggg                                                     >  2:347987/1‑140 (MQ=255)                                                                                      ccccGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGaa                                                  <  2:365840/140‑1 (MQ=255)                                                                                      ccccGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGaa                                                  <  1:552438/140‑1 (MQ=255)                                                                                      ccccGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGaa                                                  <  2:1052915/140‑1 (MQ=255)                                                                                               cgcgGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTg                                         >  1:1230214/1‑140 (MQ=255)                                                                                               cgcgGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCCTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTg                                         >  2:462504/1‑140 (MQ=255)                                                                                                   gggAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCg                                     >  2:538346/1‑140 (MQ=255)                                                                                                     gAACTCTCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTa                                   >  1:1487466/1‑140 (MQ=255)                                                                                                        ctctCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTATcg                                >  1:890394/1‑140 (MQ=255)                                                                                                        ctctCAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTATcg                                >  1:446296/1‑140 (MQ=255)                                                                                                          ctcAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTATcgcc                              >  2:578683/1‑140 (MQ=255)                                                                                                           tcAACATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTATcgccg                             <  1:430959/140‑1 (MQ=255)                                                                                                             aaCATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTATCGCcgcg                           >  1:894779/1‑140 (MQ=255)                                                                                                              aCATTATCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTATCGCcgcgc                          <  1:741188/140‑1 (MQ=255)                                                                                                                   aTCAATTACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTATCGCCGCGCGTCTg                     >  2:717067/1‑140 (MQ=255)                                                                                                                         tACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTATCGCCGCGCGTCTGCGAAAg               <  1:1010296/140‑1 (MQ=255)                                                                                                                         tACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTATCGCCGCGCGTCTGCGAAAg               <  1:347987/140‑1 (MQ=255)                                                                                                                         tACAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTATCGCCGCGCGTCTGCGAAAg               >  1:338370/1‑140 (MQ=255)                                                                                                                          aCAACCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTATCGCCGCGCGTCTGCGAAAGc              <  1:198176/140‑1 (MQ=255)                                                                                                                            aaCCGACAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTATCGCCGCGCGTCTGCGAAAGCgg            >  1:733865/1‑140 (MQ=255)                                                                                                                                 aCAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTATCGCCGCGCGTCTGCGAAAGCGGTTTAt       <  2:890394/140‑1 (MQ=255)                                                                                                                                 aCAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTATCGCCGCGCGTCTGCGAAAGCGGTTTAt       >  2:962577/1‑140 (MQ=255)                                                                                                                                  cAGGGAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTATCGCCGCGCGTCTGCGAAAGCGGTTTATc      >  2:305969/1‑140 (MQ=255)                                                                                                                                     ggAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTATCGCCGCGCGTCTGCGAAAGCGGTTTATcccc   >  2:1009162/1‑140 (MQ=255)                                                                                                                                      gAGCTCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTATCGCCGCGCGTCTGCGAAAGCGGTTTATCCCCg  >  2:1285717/1‑140 (MQ=255)                                                                                                                                          |                                                                                                                                        GGTATGCGCGATTCGCGGTTTATCCCCGCTGGCGCGGGGAACTCGCGACCGCTCAGAAATTCCAGACCCGATCCAAACGGTTTATCCCCGCTGGCGCGGGGAACTCTCAACATTATCAATTACAACCGACAGGGAGCCCGGTTTATCCCCGCTGGCGCGGGGAACTCAGCGTGTTCGGCATCACCTTTGGCTTCGGCTGCGGTTTATCCCCGCTGGCGCGGGGAACTCTGCGTGAGCGTATCGCCGCGCGTCTGCGAAAGCGGTTTATCCCCG  >  NC_000913/2878175‑2878447

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑