Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,441,528	C→A	D50Y (GAC→TAC)	rpsD ←	30S ribosomal subunit protein S4

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,441,528	0	C	A	100.0%	108.7 / NA	30	D50Y (GAC→TAC)	rpsD	30S ribosomal subunit protein S4
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (13/17);  total (13/17)

AACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACGACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTCAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTACACTTGGTATCGATCGCGCGAACGCCAGACTTAAGGAATAAGTCGGTGCCCTCACGACGGCTCAGCTTGAGCTTAGGACCCAAATATCTTGCCATTTTCTTTCTCCAACAAACCTGGAAAACGAGGCGTTATACGCGACGTTTTTTCGGCGGACGACAACCGTTATGAGGGATC  >  NC_000913/3441286‑3441754                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                   aacaacACGAACGTTTACCATAAATGCGTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACCACGTTGGCCAGAAGACCTTCCAGCAGAGCCAACAGGTTTTCCCCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGACCTTTTTGCTTTTCACGCACCTGCACACCATAGTAagacagac                                                                                                                                                                                                                            <  2:176941/251‑1 (MQ=255)  acaacaCGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACGACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGAcg                                                                                                                                                                                                                           <  2:16726/251‑1 (MQ=255)             gTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACGACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTTCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTGTAcgcg                                                                                                                                                                                                                <  2:30899/251‑1 (MQ=255)                 cccATAAGTGCTGTATGGCTCACCAGCTGACGTGCTTCTGCACGAGTGGCTCCGAAGCCCATACGGTATACAACGTTGTCCAGACGTCCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCAcc                                                                                                                                                                                                            <  2:171879/250‑1 (MQ=255)                           cTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACGACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGcc                                                                                                                                                                                                   >  1:206690/1‑250 (MQ=255)                             ttATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACGACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAg                                                                                                                                                                                                 <  2:183014/250‑1 (MQ=255)                                tGGCTCACCAGATAACGAGCTTCAGCACGCGTGGCAACGAAGCCCATAGGGAATACAACGTTGTCCAGACGTACTTCAAGCAGCGACCACAGGCTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTCAAGACGTCAAGGAACTGACGCTCCAGCACACCCTAGATACGGCGCACTTTTTGTTTTTCACCCAAATGCACACCATAGTAAGCCAGACGCGGTTTACGCGCACCGTGCTGTCCAggcgc                                                                                                                                                                                             >  2:234380/1‑248 (MQ=255)                                        cAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACGACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCaa                                                                                                                                                                                     <  2:83332/251‑1 (MQ=255)                                           cTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACGACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAAttt                                                                                                                                                                                  >  1:101679/1‑251 (MQ=255)                                              aCGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACGACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTCTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTac                                                                                                                                                                               <  2:117454/251‑1 (MQ=255)                                                    ttCTGAACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACGACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTACACTTgg                                                                                                                                                                         >  1:166641/1‑251 (MQ=255)                                                     tCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACGACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTACACTTGGt                                                                                                                                                                        >  1:189463/1‑251 (MQ=255)                                                        gCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACGACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTACACTTGGTat                                                                                                                                                                      <  2:155026/250‑1 (MQ=255)                                                             aGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACGACCTTCCAGCAGAGCCAACAGGGTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTACACTTGGTatcgatcg                                                                                                                                                                <  2:231561/251‑1 (MQ=255)                                                                   aCCGAAGACCATACGGTATACAACGTTGTCCAGACGACATTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGCCGCTCCAGCTCACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACTCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTACATTTTACACTTGGTATCGATCGCGCGa                                                                                                                                                           >  2:169408/1‑250 (MQ=255)                                                                                  gTATACAACGTTGTCCAGACGACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTACACTTGGTATCGATCGCGCGAACGCCAGACTTAAGGa                                                                                                                                           <  1:26088/251‑1 (MQ=255)                                                                                                  aGACGACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTGACACTTGGTATCGATCGCGCGAACGCCAGACTTAAGGAATAAGTCGGTGCCCTc                                                                                                                           <  1:77745/251‑1 (MQ=255)                                                                                                   gacgacCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTACACTTGGTATCGATCGCGCGAACGCCAGACTTAAGGAATAAGTCGGTGCCCTc                                                                                                                           >  1:116555/1‑250 (MQ=255)                                                                                                               gcagAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTACACTTGGTATCGATCGCGCGAACGCCAGACTTAAGGAATAAGTCGGTGCCCTCACGACGGCTCAGc                                                                                                              <  2:51763/251‑1 (MQ=255)                                                                                                                cagAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTACACTTGGTATCGATCGCGCGAACGCCAGACTTAAGGAATAAGTCGGTGCCCTCACGACGGCTCAGCt                                                                                                             >  1:153058/1‑251 (MQ=255)                                                                                                                          aGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTACACTTGGTATCGATCGCGCGAACGCCAGACTTAAGGAATAAGTCGGTGCCCTCACGACGGCTCAGCTTGAGCTTAgg                                                                                                   >  2:47229/1‑251 (MQ=255)                                                                                                                               ttCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTACACTTGGTATCGATCGCGCGAACGCCAGACTTAAGGAATAAGTCGGTGCCCTCACGACGGCTCAGCTTGAGCTTAGGAccc                                                                                               <  1:188236/250‑1 (MQ=255)                                                                                                                                                  aGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGACCTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGAAGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTACACTTGGTATCGATCGCGCGAACGCCAGACTTAAGGAATAAGTCGGTGCCCTCACGACGGCTCAGCTTGAGCTTAGGACCCAAATATCTTGCCATtttctt                                                                           >  1:137031/1‑251 (MQ=255)                                                                                                                                                       tgctgcTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTACACTTGGTATCGATCGCGCGAACGCCAGACTTAAGGCATAAGTCGGTGCCCTCACGACGGCTCAGCTTGAGCTTAGGACCCAAATATCTTGCCATTTTCTTTCTcc                                                                      >  1:119255/1‑251 (MQ=255)                                                                                                                                                                                    gACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTACACTTGGTATCGATCGCGCGAACGCCAGACTTAAGGAATAAGTCGGTGCCCTCACGACGGCTCAGCTTGAGCTTAGGACCCAAATATCTTGCCATTTTCTTTCTCCAACAAACCTGGAAAACGAGGCGTTATAc                                          <  1:125765/250‑1 (MQ=255)                                                                                                                                                                                     aCGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTACACTTGGTATCGATCGCGCGAACGCCAGACTTAAGGAATAAGTCGGTGCCCTCACGACGGCTCAGCTTGAGCTTAGGACCCAAATATCTTGCCATTTTCTTTCTCCAACAAACCTGGAAAACGAGGCGTTATAcgc                                        <  2:147568/251‑1 (MQ=255)                                                                                                                                                                                           cAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTACACTTGGTATCGATCGCGCGAACGCCAGACTTAAGGAATAAGTCGGTGCCCTCACGACGGCTCAGCTTGAGCTTAGGACCCAAATATCTTGCCATTTTCTTTCTCCAACAAACCTGGAAAACGAGGCGTTATACGCGACGtt                                  <  1:152567/251‑1 (MQ=255)                                                                                                                                                                                                  ccATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGATCAATTTTACACTTGGTATCGATCGCGCGAACGCCAGACTTAAGGAATAAGTCGGTGCCCTCACGACGGCTCAGCTTGAGCTTAGGACCCAAATATCTTGCCATTTTCTTTCTCCAACAAACCTGGAAAACGAGGCGTTATACGCGACGTTTTTTcgg                           >  1:232582/1‑251 (MQ=255)                                                                                                                                                                                                   cATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTACACTTGGTATCGATCGCGCGAACGCCAGACTTAAGGAATAAGTCGGTGCCCTCACGACGGCTCAGCTTGAGCTTCGGACCCAAATATCTTGCCATTTTCTTTCTCCAACAAACCTGGAAAACGAGGCGTTATACGCGACGTTTTTTcggc                          >  1:233570/1‑251 (MQ=255)                                                                                                                                                                                                                            ttCACGCAACTGCACACCATAGTAAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTACACTTGGTATCGATCGCGCGAACGCCAGACTTAAGGAATAAGTCGGTGCCCTCACGACGGCTCAGCTTGAGCTTAGGACCCAAATATCTTGCCATTTTCTTTCTCCAACAAACCTGGAAAACGAGGCGTTATACGCGACGTTTTTTCGGCGGACGACAACCGTTATGAGGGATc  <  2:6531/250‑1 (MQ=255)                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                   AACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACGACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTCAGACAGACGCGGTTTACGCGCACCGTGCTGGCCAGGAGCTTGTTCAATTTTACACTTGGTATCGATCGCGCGAACGCCAGACTTAAGGAATAAGTCGGTGCCCTCACGACGGCTCAGCTTGAGCTTAGGACCCAAATATCTTGCCATTTTCTTTCTCCAACAAACCTGGAAAACGAGGCGTTATACGCGACGTTTTTTCGGCGGACGACAACCGTTATGAGGGATC  >  NC_000913/3441286‑3441754

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑