Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP006881	2,197,826	T→C	Q104Q (CAA→CAG)	U712_11010 ←	Chorismate synthase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP006881	2,197,826	0	T	C	100.0%	183.8 / NA	57	Q104Q (CAA→CAG)	U712_11010	Chorismate synthase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (28/29);  total (28/29)

GCCGCCACTCTGACAGTTGTTTCCCTTGCTGAAGAGCGCTCAAGCACATTTCTCATATCACGGTGATTATATTTAATCGCTCCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATTTGGCGCTTCATTTCCTTTTCTTCATCCTCTGTAATCGGAGCCGCACCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACGACGAGAGCAATTGGTGAACCGAGTGTTCGTGCATGACGCACCCCGCTC  >  CP006881/2197707‑2197961                                                                                                                        |                                                                                                                                        gccgccACTCTGACAGTTGTTTCCCTTGCTGAAGAACGCTCAAGCACATTTCTCATATCACGATGATTATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCttt                                                                                                                       >  6:398283/1‑138 (MQ=255) gccgccACTCTGACAGTTGTTTCCCTTGCTGAAGAACGCTCAAGCACATTTCTCATATCACGATGAATATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATATCCtttt                                                                                                                      >  7:338344/1‑139 (MQ=255)  ccgccACTCTGACAGTTGTTTCCCTTGCTGAAGAACGCTCAAGCACATTTCTCATATCACGATGATTATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTttc                                                                                                                     <  1:214554/139‑1 (MQ=255)      cACTCTGACAGTTGTTTCCCTTGCTGAAGAACGCTCAAGCACATTTCTCATATCACGATGATTATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGGGCGTCAGTTCCttttggtca                                                                                                                 >  8:269881/1‑134 (MQ=255)         tctGACAGTTGTTTCCCTTGCTGAAGAACGCTCAAGCACATTTCTCATATCACGATGATTATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTGCAGTTCCGTTTGTTAATca                                                                                                              >  2:406291/1‑138 (MQ=255)             aCAGTTGTTTCCCTTGCTGAAGAACGCTCAAGCACATTTCTCATATCACGATGATTATCTTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCttc                                                                                                            <  1:406291/137‑1 (MQ=255)             aCAGTTGATTCCCTTGCTGAAGAACGCTCAAGCACATTTCTCATATCACGATGATTATATTTAATTGCACCGTTTAAGTCAGCGGGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCAtcttct                                                                                                           <  5:90409/138‑1 (MQ=255)                           tGCTGAAGAACGCTCAAGCACATTTCTCATATCACGATGATTATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGcg                                                                                            >  3:183477/1‑138 (MQ=255)                           tGCTGAAGAACGCTCAAGCACATTTCTCATATCACGATGATTATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCGTCATCTTCTGTAATCGGAGCGGcg                                                                                            >  7:60014/1‑138 (MQ=255)                            gCTGAAGAACGCTCAAGCACATTTCTCATATCACGATGATTATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGcg                                                                                            <  4:222091/138‑2 (MQ=255)                                     cgcTCAAGCACATTTCTCATATCACGATGATTATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTACTTTTGTTCATATTCTGTTATCGTAGCTGCGCCCATGAttt                                                                                  >  7:322929/1‑139 (MQ=255)                                         cAAGCACATTTCTCATATCACGATGATTATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGt                                                                              <  1:321058/139‑1 (MQ=255)                                          aaGCACATTTCTCATATCACGATGATTATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCAt                                                                                                                >  7:172680/1‑104 (MQ=255)                                          aaGCACATTTCTCATATCACGATGATTATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCAt                                                                                                                <  8:172680/104‑1 (MQ=255)                                          aaGCACATTTCTCATATCACGATGATTATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTg                                                                               <  8:180844/137‑1 (MQ=255)                                          aaGCACATTTCTCATATCACGATGATTATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTc                                                                             <  7:56492/139‑1 (MQ=255)                                             cacaTTTCTCCTATAAAGATGATTATATTTATTTGCAACGTTTAAGTCATAGTGCCCATGTCTCGGTCTTGAAAGCTGGAGCTTCATTTCCTTTTCTTCATATGCTGTAATCGGATCGGCGCCCATGATTTTTGTCCaa                                                                          <  7:278346/139‑1 (MQ=255)                                                  ttCTCATATCACGATGATTATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCAATTACTTTTCTTAATATTATGTAATAGGAGCGGCGCCCCATATTTTTGTCCTATgat                                                                      >  4:77790/1‑136 (MQ=255)                                                  ttCTCATATCACGATGATTATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCGACTCTTCCTTTTCGTGATCATCTGTAATCGGAGCGGCGCCCCATATTTTTTTCCAAGGCt                                                                      >  5:425864/1‑138 (MQ=255)                                                               atGATTATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTGCTTTTGTTCATCTTGTGTAATCGGAGCGGCGCCCATGTTTTTTGTGCAATGGTTGCAATCGTTAttt                                                        >  4:168391/2‑139 (MQ=255)                                                               atGATTATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCAtcttct                                                                                                           >  6:3225/2‑88 (MQ=255)                                                               atGATTATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCAtcttct                                                                                                           <  5:3225/87‑1 (MQ=255)                                                               atGATTATATTTAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTAATTTCCTTTTCTTCGTCTTCTGTTATCGGAGCGGCGCCCATGATTTTTGTAGATTGCTTACAATCGTTAttt                                                        >  8:75501/2‑139 (MQ=255)                                                                        tttAATTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTGTTCATCTTCTGTTATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCCATCGTTTTTTTCAactacg                                               >  5:75066/1‑139 (MQ=255)                                                                           aaTTGCACCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTTTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAActacga                                              >  6:314458/1‑137 (MQ=255)                                                                                caccGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATATTCTGTAATCGGAGCGGGGCCCATGATTTTTGTGGAATTCGTGCAAACGTTTTTTTAAACTTCGACTGCAAt                                       >  2:76207/3‑139 (MQ=255)                                                                                   cGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTgg                                    <  5:263872/139‑1 (MQ=255)                                                                                   cGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTgg                                    <  4:183477/139‑1 (MQ=255)                                                                                     tttAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCATTTCTTCATCATCTGTAATAGGAGCGGCGCCCAAGATTTTTTTGCAATGCTTCCAATCCTTATTTTCAACAACTAGAGCAATTggc                                   >  6:186526/1‑137 (MQ=255)                                                                                       tAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCaa                                                                 <  8:288095/106‑1 (MQ=255)                                                                                       tAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCaa                                                                 >  7:288095/1‑106 (MQ=255)                                                                                        aaGTCAGCGTGCCCAGGTCGCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGTGaa                                <  6:249005/138‑1 (MQ=255)                                                                                        aaGGCAGCGGGCCCAGGTCTCGGGCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGaa                                <  6:75066/138‑1 (MQ=255)                                                                                         aggcAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAAcc                              <  6:444032/136‑1 (MQ=255)                                                                                         aGTGAGCGTGCCCAGGTCTCGGTCAGGAAATCTGGCGCTTCTTTTCCTTTTCTTCCTCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAAcc                              <  4:360783/139‑1 (MQ=255)                                                                                         aGTCTGCGTGCCCAGGGCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTGCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCTATCGTTATTTTCAACTACGAGAGCAATTGGCGAAcc                              <  8:52533/139‑1 (MQ=255)                                                                                         aGTCAGCGTGCCCAGGTCTCGGGCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAAcc                              <  7:269881/139‑1 (MQ=255)                                                                                          gTCAGCGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCGTCATTTCCTTTTCTTCATCTTATGTTATCGGAGCGGCGCCCAAGATTTTTGTCCAATGCTTCGAATAGTTATTTTAAACTACGAGGGCAATTGGAGAACCg                             >  8:239831/1‑139 (MQ=255)                                                                                           gacaggTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGa                            <  3:274562/134‑1 (MQ=255)                                                                                               cGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTGATTTCCTTTTCTTCGTCTTCTGTAATCGGTGCGGCGGCCATGTTTTTTGTGCAATGGTTCCAAACGTTATTTTCAAATAGGAGAGCAATTGGCGAGCCGGgtgt                        >  3:26423/1‑139 (MQ=255)                                                                                               cGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTGATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCCTGATTTTTTTCCACTGCTTCCAATCGTTTTTTTGAACTACGAGAGCAATTGGCGCACCGAgtg                         >  3:43522/1‑138 (MQ=255)                                                                                               cGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTGTTCATCTTCTGTTATCGGAGCGGCGCCCCTGTTTTTTGTCCAATGCTTCCAATCGTTATTTTGAACTACGAGAGCAATTGGCGGACCGAggg                         >  3:278188/1‑136 (MQ=255)                                                                                               cGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTGATCTTCTGTAATCGGAGCGGCGCCCATGGTTTTTGTGCAATGCTTCCAATCGTTTTTTTGAACAAAGAGAGCAATTGGCGAAACGAgtg                         >  1:82333/1‑138 (MQ=255)                                                                                               cGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCg                                                              <  8:408648/101‑1 (MQ=255)                                                                                               cGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCg                                                              >  7:408648/1‑101 (MQ=255)                                                                                               cGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAgtgt                        <  7:15602/139‑1 (MQ=255)                                                                                               cGTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATATTCTTTAATCCGAGCGGCGCCCCATATTTTTGTGCAAAGATTCCAATCGTTAATTTAAACAACGACACCAAATGGCGAAACGAgtg                         >  5:71953/1‑138 (MQ=255)                                                                                               cGTGCCCAGGTCTCGGGCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTACTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAgtgt                        <  3:134128/139‑1 (MQ=255)                                                                                               cGTGCCCAGGGCTCGGGCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGACCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAgtgt                        <  7:22065/139‑1 (MQ=255)                                                                                                gTGCCCAGGTCTCGGTCTGGAAATCTGGCGCTTCAATTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAgtgta                       <  2:182076/139‑2 (MQ=255)                                                                                                      aGGTCTCGGTCTGGAAATCTTGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCa                 <  5:186526/139‑1 (MQ=255)                                                                                                             ggTCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAAATACGATAGCAATTTGCGAACCGAGTGTACGTTCCTGGCGCa          >  7:423394/1‑139 (MQ=255)                                                                                                             ggTCTGGAAATCTGGCGCTTCAGTTCCTTTTAGTGATCTTCTGTAATCGGAGAGGCGCCCATGATTTTTGTCAAATGCGTACAATCGTTATTTTCAACTACGATCGGAATTGGCGCCCCGAGTGTACGTGCCTGGCGCa          >  6:174228/1‑139 (MQ=255)                                                                                                               tCTGGAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCAcc        <  3:68683/139‑1 (MQ=255)                                                                                                                  ggAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAAcc                              <  3:270059/114‑1 (MQ=255)                                                                                                                  ggAAATCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAAcc                              >  4:270059/1‑114 (MQ=255)                                                                                                                     aaTCTGGCGCTTCATTTCCTTTTCTTCATCTTCTGTAATCGGAGCGGCGCCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACTACGAGAGCAATTGGCGAACCGAGTGTACGTGCATGGCGCACCCCGCTc  <  4:341121/139‑1 (MQ=255)                                                                                                                        |                                                                                                                                        GCCGCCACTCTGACAGTTGTTTCCCTTGCTGAAGAGCGCTCAAGCACATTTCTCATATCACGGTGATTATATTTAATCGCTCCGTTTAAGTCAGCGTGCCCAGGTCTCGGTCTGGAAATTTGGCGCTTCATTTCCTTTTCTTCATCCTCTGTAATCGGAGCCGCACCCATGATTTTTGTCCAATGCTTCCAATCGTTATTTTCAACGACGAGAGCAATTGGTGAACCGAGTGTTCGTGCATGACGCACCCCGCTC  >  CP006881/2197707‑2197961

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑