Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,068,285	Δ1 bp	intergenic (+31/+226)	ymdF → / ← rutG	KGG family protein/pyrimidine permease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,068,285	0	T	.	100.0%	183.5 / NA	44	intergenic (+31/+226)	ymdF/rutG	KGG family protein/pyrimidine permease
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (18/26);  total (18/26)

TGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCATCTGAAGCAGGT‑AAAAAAGGTGGTAAGAGCAGTCACGGCAAAAGCGACAACTAGCCGGGCTAATCAATGACGAATGCATTTTTGTCTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTATCAGGCCTACCAGAAGATTGCAATATATTGAATTTGCACTGT  >  NC_000913/1068155‑1068414                                                                                                                                    |                                                                                                                                  tGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCATCTGAAGCAGGT‑AAAAAAGGTGGTAAGAGCAGTCACGGTAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCg                                                                                                                         >  1:598378/1‑139 (MQ=255) tGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCATCTGAAGCAGGT‑AAAAAAGGTGGTAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCg                                                                                                                         >  1:248897/1‑139 (MQ=255)             cGGGGGTAATTTCAAGAATGACCCGCAGCGCGCATCTGAAGCAGGT‑AAAAAAGGTGGTAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCAt                                                                                                             >  1:309828/1‑139 (MQ=255)             cGGGGGTAATTTCAAGAATGACCCGCAGCGCGCATCTGAAGCAGGT‑AAAAAAGGTGGTAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCAt                                                                                                             >  1:601259/1‑139 (MQ=255)              gggggTAATTTCAAGAATGACCCGCAGCGCGCATCTGAAGCAGGT‑AAAAAAGGTGGTAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATc                                                                                                            >  2:708901/1‑139 (MQ=255)                 ggTAATTTCAAGAATGACCCGCAGCGCGCATCTGAAGCAGGT‑AAAAAAGGTGGTAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCAcc                                                                                                         <  1:290913/139‑1 (MQ=255)                      tttCAAGAATGACCCGCAGCGCGCATCTGAAGCAGGT‑AAAAAAGGTGGTAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCgg                                                                                                    <  1:658325/139‑1 (MQ=255)                           aGAATGACCCGCAGCGCGCATCTGAAGCAGGT‑AAAAAAGGTGGTAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTAcc                                                                                               <  2:112915/139‑1 (MQ=255)                             aaTGACCCGCAGCGCGCATCTGAAGCAGGT‑AAAAAAGGTGGTAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCg                                                                                             <  2:77418/139‑1 (MQ=255)                             aaTGACCCGCAGCGCGCATCTGAAGCAGGT‑AAAAAAGGTGGTAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCg                                                                                             <  2:232968/139‑1 (MQ=255)                              aTGACCCGCAGCGCGCATCTGAAGCAGGTAAAAAAAGGTGGTAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCg                                                                                             <  1:743490/139‑1 (MQ=255)                                 aCCCGCAGCGCGCATCTGAAGCAGGT‑AAAAAAGGTGGTAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCggtgg                                                                                         >  1:81106/1‑139 (MQ=255)                                  cccGCAGCGCGCATCTGAAGCTGGT‑AAAAAAGGTGGTAAGAGCAGTCACGGCAAAAGCGACAACTAACCCGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCggtggt                                                                                        <  2:448834/139‑1 (MQ=255)                                                   aaGCAGGT‑AAAAAAGGTGGTAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAAt                                                                       <  2:14960/139‑1 (MQ=255)                                                   aaGCAGGT‑AAAAAAGGTGGTAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAAt                                                                       >  2:769127/1‑139 (MQ=255)                                                        ggT‑AAAAAAGGTGGTAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAg                                                                  <  2:403784/139‑1 (MQ=255)                                                        ggT‑AAAAAAGGTGGTAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAg                                                                  <  2:24959/139‑1 (MQ=255)                                                          t‑AAAAAAGGTGGTAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCt                                                                >  2:629492/1‑139 (MQ=255)                                                                    tggtAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAAt                                                                       <  2:135848/123‑1 (MQ=255)                                                                    tggtAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAAt                                                                       >  1:135848/1‑123 (MQ=255)                                                                    tggtAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATg                                                       >  2:374048/1‑139 (MQ=255)                                                                     ggtAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATa                                                                                   <  1:299816/110‑1 (MQ=255)                                                                     ggtAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATa                                                                                   >  2:299816/1‑110 (MQ=255)                                                                     ggtAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAAt                                                                       >  2:630863/1‑122 (MQ=255)                                                                     ggtAAGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAAt                                                                       <  1:630863/122‑1 (MQ=255)                                                                      gtAAGGGCAGTCACGGCAAAAGCAACAACTAACCTGTATAATCAATAACGAAT‑CATTTTTG‑ATGTAGCTAGTCAAAAGGCCATCACCGCGGGTTAGCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATgcg                                                     <  2:309828/139‑1 (MQ=255)                                                                        aaGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGcgcg                                                   <  1:708901/139‑1 (MQ=255)                                                                        aaGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGcgcg                                                   <  2:601259/139‑1 (MQ=255)                                                                        aaGAGCAGTCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGcgcg                                                   <  1:769127/139‑1 (MQ=255)                                                                                tCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTg                                                                                      <  2:358800/96‑1 (MQ=255)                                                                                tCACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTg                                                                                      >  1:358800/1‑96 (MQ=255)                                                                                 cACGGCAAAAGCGACAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTATc                                          <  1:307104/139‑1 (MQ=255)                                                                                              aCAACTAACCGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTATCAGGCCTACCagaa                             <  2:598378/139‑1 (MQ=255)                                                                                                     accGGGCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTATCAGGCCTACCAGAAGATTGCa                      <  1:63220/138‑1 (MQ=255)                                                                                                         ggCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTATCAGGCCTACCAGAAGATTGCAatat                  >  1:608747/1‑139 (MQ=255)                                                                                                          gCTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTATCAGGCCTACCAGACGATTGCAatata                 >  2:5701/1‑139 (MQ=255)                                                                                                           cTAATCAATGACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTATCAGGCCTACCAGAAGATTGCAatatat                <  1:365504/139‑1 (MQ=255)                                                                                                                    gACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTATCAGGCCTACCagaa                             <  1:637206/117‑1 (MQ=255)                                                                                                                    gACGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTATCAGGCCTACCagaa                             >  2:637206/1‑117 (MQ=255)                                                                                                                     aCGAAT‑CATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTATCAGGCCTACCAGAAGATTGCAATATATTGAATTTGCa      <  2:608747/139‑1 (MQ=255)                                                                                                                        gaatcATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTATCAGGCCTACCAGAAGATTGCAATATATTGAATTGGCACt    <  2:81106/135‑1 (MQ=255)                                                                                                                         aatcATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATgcg                                                     >  2:708843/4‑89 (MQ=255)                                                                                                                         aatcATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATgcg                                                     <  1:708843/86‑1 (MQ=255)                                                                                                                          atcATTTTTG‑CTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTATCAGGCCTACCAGAAGATTGCAATATATTGAATTTGCACTGt  >  2:478799/3‑139 (MQ=255)                                                                                                                                    |                                                                                                                                  TGGACAGCACAGCGGGGGTAATTTCAAGAATGACCCGCAGCGCGCATCTGAAGCAGGT‑AAAAAAGGTGGTAAGAGCAGTCACGGCAAAAGCGACAACTAGCCGGGCTAATCAATGACGAATGCATTTTTGTCTGTAGCTCGTCAAAAAGCCATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTATCAGGCCTACCAGAAGATTGCAATATATTGAATTTGCACTGT  >  NC_000913/1068155‑1068414

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑