Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP006881	3,723,118	C→T	100%	intergenic (‑232/‑69)	U712_19190 ← / → U712_19195	PTS system sucrose‑specific EIIBC component/putative transporter ywcJ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP006881	3,723,118	0	C	T	100.0%	204.4 / NA	61	intergenic (‑232/‑69)	U712_19190/U712_19195	PTS system sucrose‑specific EIIBC component/putative transporter ywcJ
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (23/38);  total (23/38)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GCCTGCTTTACCAGTCACAATCCCGCTTATTCAGATTGAGAATACGCTTTCATCATAAATTATGATAGCGTTTTCGTCAAC‑T‑G‑TTTTTTAGTTAAATAGTTTGATAAAACTTTTAGACAAAAATTCGTAAAAACTATTTGTGAAAAACTTCACAATATCGTGCTATACTATGCTCAACCATCAAAGAAAGCAGGAAAAAACAATGGAAACTCAAGCATTGCAAAAAGTTGAACAGTACGCTTTGAACAAACTAAACATATTTGTTT  >  CP006881/3722985‑3723250                                                                                                                                         |                                                                                                                                     gCCTGCTTTACCAGTCACAATCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTaat                                                                                                                                  >  1:314410/1‑137 (MQ=255) gCCTGCTTTACCAGTCACAATCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTaa                                                                                                                                   <  3:46428/138‑2 (MQ=255) gCCTGCTTTACCAGTCACAATCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTaa                                                                                                                                   <  3:167645/138‑2 (MQ=255) gCCTGCTTTACCAGTCACAATCCCGCTTATTAAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTGAACTT‑T‑TTTTTTAGTTAATTAGTTTGATATTACATGTAGACAAAAATTCGTTAAAATTaat                                                                                                                                  >  5:306315/1‑137 (MQ=255) gCCTGCTTTACCAGTCACAATCACGCTTAATCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTaa                                                                                                                                   <  4:266177/138‑2 (MQ=255)         tACCAGTCACAATGCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGAAAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGaaa                                                                                                                           <  3:237349/138‑1 (MQ=255)          aCCTGTCACAACCCCGCTTAATCAGAATAAGAATACGCTTACATCATAAATCATGATAGCGGTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTAGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGaaata                                                                                                                         <  6:84051/139‑3 (MQ=255)           ccAGTCACAATCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGaaata                                                                                                                         <  6:84053/138‑3 (MQ=255)           ccAGTCACAATCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATAc                                                                                                                        >  8:346511/1‑139 (MQ=255)             aGTCACAATCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACtt                                                                                                                      <  8:173727/139‑1 (MQ=255)                    aTCCCGGTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                               <  2:281898/139‑1 (MQ=255)                    aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                               <  6:204333/139‑1 (MQ=255)                    aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                               <  4:280792/139‑1 (MQ=255)                    aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                               <  7:225398/139‑1 (MQ=255)                    aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                               <  6:330166/139‑1 (MQ=255)                    aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                               <  5:125086/139‑1 (MQ=255)                    aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                               <  6:260248/139‑1 (MQ=255)                    aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                               <  1:45528/139‑1 (MQ=255)                    aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                               <  1:41592/139‑1 (MQ=255)                    aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                               <  1:200780/139‑1 (MQ=255)                    aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGCTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                               <  4:160924/139‑1 (MQ=255)                    aTCCCGCATATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGGTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                               <  2:299087/139‑1 (MQ=255)                     tCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAatat                                                                                                              >  4:286221/1‑139 (MQ=255)                         gCTTCTTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTg                                                                                                          <  8:15162/139‑1 (MQ=255)                         gCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTg                                                                                                          <  5:324904/139‑1 (MQ=255)                          cTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                               >  1:127228/1‑133 (MQ=255)                          cTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                               <  2:127228/133‑1 (MQ=255)                              ttCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCtata                                                                                                     <  7:283363/139‑1 (MQ=255)                              ttCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCtat                                                                                                      <  2:26213/138‑1 (MQ=255)                                   aTTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGa                                                                                                                             >  2:327707/1‑110 (MQ=255)                                   aTTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGa                                                                                                                             <  1:327707/110‑1 (MQ=255)                                   aTTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                               >  5:256589/1‑124 (MQ=255)                                   aTTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                               <  6:256589/124‑1 (MQ=255)                                   aTTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTg                                                                                                          <  3:71537/129‑1 (MQ=255)                                   aTTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTg                                                                                                          >  4:71537/1‑129 (MQ=255)                                   aTTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATg                                                                                                >  6:295696/1‑139 (MQ=255)                                   aTTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGGAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATg                                                                                                >  4:210646/1‑139 (MQ=255)                                   aTTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAA‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGATATACTAt                                                                                                 >  4:201843/1‑138 (MQ=255)                                   aTTAAGAATACGCTTTCATCATAAATCATGATAGAGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATg                                                                                                >  5:20519/1‑139 (MQ=255)                                           tACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCa                                                                                        >  7:194624/1‑139 (MQ=255)                                           tACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCa                                                                                        <  5:296013/139‑1 (MQ=255)                                             cGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCAt                                                                                       >  4:303282/1‑138 (MQ=255)                                                                   aGCGTTTTCGTCAAC‑TAT‑TTTTTTAGTTAAATAGTTTGATATAACATTTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAATCAGGAAAATACAAt                                                                >  1:12090/1‑139 (MQ=255)                                                                            gTCAAC‑T‑ATTTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAACGCAGGAAAAGACAATGGAAACTc                                                        >  8:42298/1‑138 (MQ=255)                                                                            gTCAAC‑T‑ATTTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTc                                                        >  8:44770/1‑138 (MQ=255)                                                                            gTCAAC‑T‑ATTTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCa                                                       <  2:314410/139‑1 (MQ=255)                                                                                        tttttAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACa                                              <  5:295696/138‑1 (MQ=255)                                                                                        tttttAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACa                                              <  3:201843/138‑1 (MQ=255)                                                                                        tttttAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACa                                              <  7:346511/138‑1 (MQ=255)                                                                                        tttttAGTTAAATAGCTTGATATAACATGGAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAAAGGAAACTCAAGCATTACa                                              <  6:313563/138‑1 (MQ=255)                                                                                              gTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATTCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGtt                                       <  1:81094/139‑1 (MQ=255)                                                                                              gTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATTAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGtt                                       <  3:210646/139‑1 (MQ=255)                                                                                                         tGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACaaa                                            >  5:21628/1‑123 (MQ=255)                                                                                                         tGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACaaa                                            <  6:21628/123‑1 (MQ=255)                                                                                                         tGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGTTGAACAGTATGc                            >  6:59157/1‑139 (MQ=255)                                                                                                                      aGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGTTGAACAGTATGCTTTGAAAAAAca                >  3:113525/1‑137 (MQ=255)                                                                                                                      aGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGATGAACAGTATGCTTTGAAAAAAca                >  1:219477/1‑137 (MQ=255)                                                                                                                       gACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGT‑CTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGTTGAACAGTATGCTTTGAAAAAACaaaa             <  3:286221/139‑1 (MQ=255)                                                                                                                            aaaTTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGTTGAACAGTATGCTTTGATAAAACAAAACata         >  8:11255/1‑139 (MQ=255)                                                                                                                            aaaTTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGTTGAACAGTATGCTTTGAAAAAACAAAACata         >  8:87450/1‑139 (MQ=255)                                                                                                                                    aaaaaTTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGTTGAACAGTATGCTTTGAAAAAACAAAACATAttcgctt  <  2:219477/138‑6 (MQ=255)                                                                                                                                         |                                                                                                                                     GCCTGCTTTACCAGTCACAATCCCGCTTATTCAGATTGAGAATACGCTTTCATCATAAATTATGATAGCGTTTTCGTCAAC‑T‑G‑TTTTTTAGTTAAATAGTTTGATAAAACTTTTAGACAAAAATTCGTAAAAACTATTTGTGAAAAACTTCACAATATCGTGCTATACTATGCTCAACCATCAAAGAAAGCAGGAAAAAACAATGGAAACTCAAGCATTGCAAAAAGTTGAACAGTACGCTTTGAACAAACTAAACATATTTGTTT  >  CP006881/3722985‑3723250

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑