Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,728,118	(C)8→9	coding (1254/1455 nt)	xylB ←	xylulokinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,728,110	1	.	C	92.7%	126.3 / 3.6	42	coding (1262/1455 nt)	xylB	xylulokinase
Reads supporting (aligned to +/- strand):  ref base . (1/2);  new base C (13/25);  total (14/28)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.39e-01

TGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑T‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACGACATCCA  >  NC_000913/3727971‑3728242                                                                                                                                               |                                                                                                                                      tGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑t                                                                                                                                        >  2:94010/1‑140 (MQ=255)         aaGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑T‑‑cccccccc                                                                                                                              <  2:663796/140‑1 (MQ=255)          aGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑T‑‑ccccccccc                                                                                                                             <  2:334913/140‑2 (MQ=255)                 tAACGCTGCGCATCTGGTAGATGTGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGTCAGCCTTGATGCACCCAGTGCTGGCGCCACG‑TC‑CCCCCCCCGTACGGt                                                                                                                       >  2:214072/1‑140 (MQ=255)                     agacagcATCTGGTAGAAGCGAGTGTTCTAAAGGTAGTTACGGCAACATTTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGGCCCACA‑TC‑CCCCCCCCGTACGGTAATc                                                                                                                   <  2:248315/135‑1 (MQ=255)                        gcgcATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAg                                                                                                                <  2:57558/140‑1 (MQ=255)                               tGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGa                                                                                                         <  2:542095/140‑1 (MQ=255)                               tGGTAGATGCGACTGATCTAACCGTTGTTCCGGCAACTATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGa                                                                                                         <  1:322194/140‑1 (MQ=255)                                   aGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGc                                                                                                     >  2:510523/1‑140 (MQ=255)                                      tGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGTTAATCGGGCTGCTGGCctctct                                                                                                  >  1:248315/1‑138 (MQ=255)                                        cGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGata                                                                                                >  1:105168/1‑140 (MQ=255)                                              ttCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGcc                                                                                          <  2:124339/140‑1 (MQ=255)                                              ttCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGcc                                                                                          >  1:402502/1‑140 (MQ=255)                                               tCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCa                                                                                         >  1:40652/1‑140 (MQ=255)                                                cTAACGGTAGTTGCGACAACAATTCAATGCGCGATTTATCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAg                                                                                        <  1:211719/140‑1 (MQ=255)                                                     ggTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCt                                                                                   <  1:510523/140‑1 (MQ=255)                                                     ggTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGACATCCGCCAGCATCt                                                                                   <  2:417789/140‑1 (MQ=255)                                                     ggTAGTTGCGGCAACAATTCAAGGAGCGATTCCTCCGGATTCGCCGC‑GCTCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCt                                                                                   <  2:282779/140‑1 (MQ=255)                                                        aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGAc                                                                                >  2:463045/1‑140 (MQ=255)                                                        aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGAc                                                                                >  1:99874/1‑140 (MQ=255)                                                        aGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGAc                                                                                >  1:579278/1‑140 (MQ=255)                                                         gTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACg                                                                               <  1:615078/140‑1 (MQ=255)                                                          ttGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGc                                                                              <  1:463045/140‑1 (MQ=255)                                                                             aGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGTCTTCCTGCGCCCGGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGcgccc                                                           <  2:243938/140‑1 (MQ=255)                                                                             aGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGcgccc                                                           <  1:53336/140‑1 (MQ=255)                                                                                      tctGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑T‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAAt                                                 <  1:62561/140‑1 (MQ=255)                                                                                       tgggATTCGCCGC‑GATCAGCGCCAGCGTTGCCGCTCCCAATGCTGGCCACAAA‑TC‑CCCCCCCCGTCCGGTATTCGAGCTGCTGTCCGCTGATATCCGCCAGCATCGGACGCCAGTACTCACTACGCGCACCGCCCCCAAt                                                 <  2:285444/138‑1 (MQ=255)                                                                                       ctGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAAt                                                 <  1:583287/140‑1 (MQ=255)                                                                                       ctGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCACCAAt                                                 >  2:394942/1‑140 (MQ=255)                                                                                       ctGGATTCGCCGC‑GAGCTGCGCCAGGCTTTCTGCGCCGAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAAt                                                 <  1:214072/140‑1 (MQ=255)                                                                                        tGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATTTCCGCCAGGATCTGACGCCAGTACTCACTAAGCGCCCCGCCCCCAATc                                                >  2:175383/1‑140 (MQ=255)                                                                                             tCGCCGCGGATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACg                                            <  2:575168/140‑1 (MQ=255)                                                                                                     gATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACACC‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACtt                                    <  1:164729/140‑1 (MQ=255)                                                                                                       tCTGCGCCAGCCTTGTTGCGCCCAGAGCTTGCCCCACT‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTg                                  <  1:192164/140‑1 (MQ=255)                                                                                                       tCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTg                                  <  2:105168/140‑1 (MQ=255)                                                                                                       tCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTg                                  <  1:375040/140‑1 (MQ=255)                                                                                                       catGCCCCAGCATTGCAGCCCCCAGTGCTGGCCGCACA‑TC‑CCCCCCCCGTACGGAAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCGCTACGCGCCCCGCCCCCAATCAACGTAACACTTTg                                  <  2:478969/138‑1 (MQ=255)                                                                                                         tGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCg                                <  1:94010/140‑1 (MQ=255)                                                                                                                gCCTTGCTGCGCCCAATGCTGGTCCAACA‑TCCCCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTaa                          <  1:243270/140‑1 (MQ=255)                                                                                                                    tgctgcGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCg                     <  2:402502/140‑1 (MQ=255)                                                                                                                    tgctgcGCCCAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCg                     <  2:579278/140‑1 (MQ=255)                                                                                                                    tgctgcGCCCAGTGCCGGCCCCACA‑TC‑CCCCCCCCGTTCGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCg                     <  1:247633/140‑1 (MQ=255)                                                                                                                     gctgcGCCCAGTGCTTGCCCCATA‑TG‑CCCGCCCCGTAGGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGc                    <  1:319717/140‑1 (MQ=255)                                                                                                                     gctgcGCCCAGTGCTGGCCCCACA‑T‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACCACGCGCCCGGCCCCCATTCAACGTAACACTATGCGGTTTAATACCGCa                   >  2:284420/1‑140 (MQ=255)                                                                                                                           cccAGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCACAAACAAGGGAACACTTTGCGTTTTAATACCGCAGGCAt              >  2:202683/1‑140 (MQ=255)                                                                                                                              aGTGCTGGCCCCACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCa           >  2:408088/1‑140 (MQ=255)                                                                                                                                       cccACA‑TC‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACGACATCCa  <  2:99874/140‑1 (MQ=255)                                                                                                                                               |                                                                                                                                      TGGCTGATAAGCGGCATAACGCTGCGCATCTGGTAGATGCGACTGTTCTAACGGTAGTTGCGGCAACAATTCAATGAGCGATTTCTCTGGATTCGCCGC‑GATCTGCGCCAGCCTTGCTGCGCCCAGTGCTGGCCCCACA‑T‑‑CCCCCCCCGTACGGTAATCGAGCTGCTGACCGCTGATATCCGCCAGCATCTGACGCCAGTACTCACTACGCGCCCCGCCCCCAATCAACGTAACACTTTGCGGTTTAATACCGCAGGCATGCACGACATCCA  >  NC_000913/3727971‑3728242

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑