Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,347,069	G→A	*164* (TAG→TAA)	ptsN →	sugar‑specific enzyme IIA component of PTS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,347,069	0	G	A	100.0%	122.7 / NA	39	*164* (TAG→TAA)	ptsN	sugar‑specific enzyme IIA component of PTS
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (17/22);  total (17/22)

TGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAGTTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCTGCGTGCGCTGGAAGATATGGGTTTTTACTGCGTGGA  >  NC_000913/3346957‑3347203                                                                                                                 |                                                                                                                                       tggCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACg                                                                                                              <  2:511522/139‑1 (MQ=255)              ggCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGaaa                                                                                                 <  2:238433/139‑1 (MQ=255)                cGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACa                                                                                               <  2:224956/139‑1 (MQ=255)                  gACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGt                                                                                             <  1:720541/139‑1 (MQ=255)                     aaaaCCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACa                                                                                          <  2:718319/139‑1 (MQ=255)                            tCTGCCGCCGTTTACGCGTAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTAC‑GATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACtg                                                                                  >  2:465308/1‑139 (MQ=255)                               gccgccGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACtgat                                                                                <  2:746997/139‑1 (MQ=255)                                      tttACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGaaa                                                                                                 <  1:602633/115‑1 (MQ=255)                                      tttACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGaaa                                                                                                 >  2:602633/1‑115 (MQ=255)                                                           tGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGaaa                                                                                                 >  2:108221/1‑94 (MQ=255)                                                           tGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGaaa                                                                                                 <  1:108221/94‑1 (MQ=255)                                                           tGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTtcaggttcaggt                                                    >  2:204084/1‑139 (MQ=255)                                                             aaGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGt                                                                                                                          <  1:33764/67‑1 (MQ=255)                                                             aaGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGt                                                                                                                          >  2:33764/1‑67 (MQ=255)                                                             aaGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTaa                                                  <  1:204084/139‑1 (MQ=255)                                                               ggggtgtcccacaTCATTACGCATACCGCAGGTACTCCGGATGAAGCGTTATTTTTCGGGATATTCTCTTTTTGACGTTTTTAGGAGAAACAGTCCAATGTACTGGTGCTCTTCAGCGGACGTACAGGGTCAGGTGAAt                                                <  2:294577/127‑1 (MQ=255)                                                                               ttACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGAc                                                                                                               >  2:778139/1‑60 (MQ=255)                                                                               ttACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGAc                                                                                                               <  1:778139/60‑1 (MQ=255)                                                                               ttACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGt                                                                                                             <  1:369416/62‑1 (MQ=255)                                                                               ttACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGt                                                                                                             >  2:369416/1‑62 (MQ=255)                                                                               ttACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAACGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCGGGTTCAGGTAAATCTGTCGCCCtgcgtgc                                >  2:473379/1‑139 (MQ=255)                                                                                tACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACa                                                                                          <  1:176052/80‑1 (MQ=255)                                                                                tACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACa                                                                                          >  2:176052/1‑80 (MQ=255)                                                                                    gATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAg                                                                                              <  2:669943/72‑1 (MQ=255)                                                                                    gATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAg                                                                                              >  1:669943/1‑72 (MQ=255)                                                                                      tACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGaaa                                                                                                 >  2:530642/1‑67 (MQ=255)                                                                                      tACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGaaa                                                                                                 <  1:530642/67‑1 (MQ=255)                                                                                         cGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAga                                                                                             >  2:489408/1‑67 (MQ=255)                                                                                         cGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGt                                                                                             <  1:489408/68‑1 (MQ=255)                                                                                          ggaagTACTCCCGATGAAGCGTAATTATTCGGTACTGTCTCTTTTAGATGTTGTGAGGAGGAACAGTACATGGTACGGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCTGCTTGCGCTGGAAGata                     <  2:78029/135‑1 (MQ=255)                                                                                                 cTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGc                                                                      <  2:503547/83‑1 (MQ=255)                                                                                                 cTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGc                                                                      >  1:503547/1‑83 (MQ=255)                                                                                                   ccGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTAc                                                                                    >  2:533540/1‑67 (MQ=255)                                                                                                   ccGGATGAAGCGTAATTATACGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTAc                                                                                    <  1:533540/67‑1 (MQ=255)                                                                                                        tGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACa                                                                                          >  1:768077/1‑56 (MQ=255)                                                                                                        tGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACa                                                                                          <  2:768077/56‑1 (MQ=255)                                                                                                        tGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCTGCGTGCGCTGGAAGATATGGGTTTTTACTGc       <  1:465308/139‑1 (MQ=255)                                                                                                           aGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCTGCGTGCGCTGGAAGATATGGGTTTTTACTGCGTg    >  2:345153/1‑139 (MQ=255)                                                                                                            gCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCTGCGTGCGCTGGAAGATATGGGTTTTTACTGCGTgg   <  1:288425/139‑1 (MQ=255)                                                                                                             cGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCTGCGTGCGCTGGAAGATATGGGTTTTTACTGCGTGGa  >  2:137298/1‑139 (MQ=255)                                                                                                                 |                                                                                                                                       TGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAGTTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCTGCGTGCGCTGGAAGATATGGGTTTTTACTGCGTGGA  >  NC_000913/3346957‑3347203

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑