Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,381,789	G→A	pseudogene (13/126 nt)	ycjV →	pseudogene, putative ATP‑binding component of a transport system

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,381,789	0	G	A	100.0%	140.9 / NA	45	pseudogene (13/126 nt)	ycjV	pseudogene, putative ATP‑binding component of a transport system
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (19/26);  total (19/26)

ATCGTGATGGGAATACGACCGGAAGATATTCATCCGGACGCGCAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAGTGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGAAAATATCACTATTCATTTTGATATGACGAAATGTCATTTCTTTGATGCAGAAACGGAAATAGCAATTCGCTAAATACAGGGGGAAGGCATTCCCC  >  NC_000913/1381655‑1381924                                                                                                                                       |                                                                                                                                        aTCGTGATGGGAATACGACCGGAAGATATTCATCCGGACGCGCAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGt                                                                                                                                     <  2:498860/139‑1 (MQ=255) aTCGTGATGGGAATACGACCGGAAGATATTCATCCGGACGCGCAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGt                                                                                                                                     <  2:61773/139‑1 (MQ=255)  tCGTGATGGGAATACGACCGGAAGATATTCATCCGGACGCGCAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGTc                                                                                                                                    >  1:470749/1‑139 (MQ=255)         gggAATACGACCGGAAGATATTCATCCGGACGCGCAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTg                                                                                                                             <  2:641864/139‑1 (MQ=255)                 gACCGGAAGATATTCATCCGGACGCGCAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTa                                                                                                                     <  1:1080141/139‑1 (MQ=255)                      gAAGATATTCATCCGGACGCGCAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGa                                                                                                                >  1:245393/1‑139 (MQ=255)                             ttCATCCGGACGCGCAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGt                                                                                                                                     >  2:222063/1‑111 (MQ=255)                             ttCATCCGGACGCGCAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGt                                                                                                                                     <  1:222063/111‑1 (MQ=255)                              tCATCCGGACGCGCAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATg                                                                                                        <  2:245393/139‑1 (MQ=255)                              tCATCCGGACGCGCAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATg                                                                                                        <  2:25752/139‑1 (MQ=255)                                 tCCGGACGCGCAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAg                                                                                                     >  2:509068/1‑139 (MQ=255)                                 tCCGGACGCGCAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAg                                                                                                     >  2:262796/1‑139 (MQ=255)                                 tCCGGACGCGCAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAg                                                                                                     >  2:1261854/1‑139 (MQ=255)                                   cGGACGCGCAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGga                                                                                                   <  1:262796/139‑1 (MQ=255)                                     gACGCGCAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGt                                                                                                                                     >  1:692465/1‑103 (MQ=255)                                     gACGCGCAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGt                                                                                                                                     <  2:692465/103‑1 (MQ=255)                                        gcgcAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGaaaa                                                                                              <  1:509068/139‑1 (MQ=255)                                        gcgcAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGaaaa                                                                                              <  2:359167/139‑1 (MQ=255)                                                        aCATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGAAAATATCACTATTCAtttt                                                                              >  2:406001/1‑139 (MQ=255)                                                                     aaTTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGc                                                                                                       >  2:13797/1‑101 (MQ=255)                                                                     aaTTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGc                                                                                                       <  1:13797/101‑1 (MQ=255)                                                                                        aCCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGAAAATATCACTATTCATTTTGATATGACGAAATGTCATTTCTTTGATGCAGa                                              <  1:406001/139‑1 (MQ=255)                                                                                             tGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGc                                                                                                       <  1:944775/77‑1 (MQ=255)                                                                                             tGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGc                                                                                                       >  2:944775/1‑77 (MQ=255)                                                                                              gCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGt                                                                                                                                     <  1:797042/46‑1 (MQ=255)                                                                                              gCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAATGGt                                                                                                                                     >  2:797042/1‑46 (MQ=255)                                                                                                            ctACACCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGga                                                                                                   >  1:15832/1‑66 (MQ=255)                                                                                                            ctACACCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGga                                                                                                   <  2:15832/66‑1 (MQ=255)                                                                                                              acacCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATg                                                                                                        <  1:1081307/59‑1 (MQ=255)                                                                                                              acacCACGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATg                                                                                                        >  2:1081307/1‑59 (MQ=255)                                                                                                                 ccacGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGAAAATATCACTATTCATTTTGATATGACGAAATGTCATTTCTTTGATGCAGAAACGGAAATAGCAATTCGCTAAATa                     <  1:1261854/139‑1 (MQ=255)                                                                                                                    cGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGAAAATATCACTATTCATTTTGATATGACGa                                                                    <  2:1275043/89‑1 (MQ=255)                                                                                                                    cGGTTGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGAAAATATAACTATTCATTTTGATATGACGa                                                                    >  1:1275043/1‑89 (MQ=255)                                                                                                                       ttGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGAAAATATCACTAt                                                                                     >  1:786069/1‑69 (MQ=255)                                                                                                                       ttGGGGGCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGAAAATATCACTAt                                                                                     <  2:786069/69‑1 (MQ=255)                                                                                                                         gggggCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGAAAATATCACTATTCATTTTGATATGACGAAATGTCATTTCTTTGATGCAGAAACGGAAATAGCAATTc                             >  1:735510/1‑123 (MQ=255)                                                                                                                         gggggCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGAAAATATCACTATTCATTTTGATATGACGAAATGTCATTTCTTTGATGCAGAAACGGAAATAGCAATTc                             <  2:735510/123‑1 (MQ=255)                                                                                                                            ggCACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGAAAATATCACTATTCATTTTGATATGACGAAATGTCATTTCTTTGATGCAGAAACGGAAATAGCAATTCGCTAAATACAGGGGGAAgg          >  2:11044/1‑139 (MQ=255)                                                                                                                              cACGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGAAAATATCACTATTCATTTTGATATGACGAAATGTCATTTCTTTGATGCAGAAACGGAAATAGCAATTCGCTAAATACAGGGGGAAGGCa        <  2:470749/139‑1 (MQ=255)                                                                                                                               aCGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGAAAATATCACTATTCATTTTGATATGACGAAATGTCATTTCTTTGATGCAGAAACGGAAATAGCAATTCGCTAAATACAGGGGGAAGGCAt       <  2:28131/139‑1 (MQ=255)                                                                                                                               aCGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGAAAATATCACTATTCATTTTGATATGACGAAATGTCATTTCTTTGATGCAGAAACGGAAATAGCAATTCGCTAAATACAGGGGGAAGGCAt       <  1:11044/139‑1 (MQ=255)                                                                                                                                cGAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGAAAATATCACTATTCATTTTGATATGACGAAATGTCATTTCTTTGATGCAGAAACGGAAATAGCAATTCGCTAAATACAGGGGGAAGGCAtt      >  1:1295058/1‑139 (MQ=255)                                                                                                                                 gAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGAAAATATCACt                                                                                       <  2:999103/57‑1 (MQ=255)                                                                                                                                 gAGTTAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGCAGAAAATATCACt                                                                                       >  1:999103/1‑57 (MQ=255)                                                                                                                                    ttAATGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGAAAATATCACTATTCATTTTGATATGACGAAATGTCATTTCTTTGATGCAGAAACGGAAATAGCAATTCGCTAAATACAGGGGGAAGGCATTcccc  <  2:1295058/139‑1 (MQ=255)                                                                                                                                       |                                                                                                                                        ATCGTGATGGGAATACGACCGGAAGATATTCATCCGGACGCGCAAGAGGAAAATAACATTTCCGCCAAAATTAGCGTGGCAGAATTAACCGGTGCGGAATTTATGCTCTACACCACGGTTGGGGGCACGAGTTAGTGGTCCGTGCTGGTGCGTTAAATGATTATCATGCAGGAGAAAATATCACTATTCATTTTGATATGACGAAATGTCATTTCTTTGATGCAGAAACGGAAATAGCAATTCGCTAAATACAGGGGGAAGGCATTCCCC  >  NC_000913/1381655‑1381924

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑