Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	AM260479	1,231,177	Δ1 bp	intergenic (+14/‑201)	glnE → / → h16_A1128	glutamine synthetase adenylyltransferase/Membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	AM260479	1,231,174	0	G	.	100.0%	90.7 / NA	21	intergenic (+11/‑204)	glnE/h16_A1128	glutamine synthetase adenylyltransferase/Membrane protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base . (12/9);  total (12/9)

ACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCACGGGTGCAGTACCTGGTGCTGCTGCACAACCCGGGCGCACCCGCAGCTGACGCGCAACGCGGGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCACCGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAGGGG  >  AM260479/1231063‑1231298                                                                                                                |                                                                                                                             accTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTgcgcg                                                                                                       >  1:79630/1‑132 (MQ=255)  ccTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAg                                                                                                    <  1:583864/134‑1 (MQ=255)  ccTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAg                                                                                                    <  1:121616/134‑1 (MQ=255)      ttCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCgtg                                                                                                <  2:350507/134‑3 (MQ=255)               aaGCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTggg                                                                                       >  1:741457/1‑134 (MQ=255)                 gCACGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGcc                                                                                     <  2:741457/134‑1 (MQ=255)                    cGATCGCGGCGGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGa                                                                                  >  2:798410/1‑134 (MQ=255)                         gcggcgGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGc                                                                                               >  2:659071/1‑116 (MQ=255)                         gcggcgGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGc                                                                                               <  1:659071/116‑1 (MQ=255)                         gcggcgGCATGGTCGATATCGAATTCAC‑GGTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGAc                                                                             >  1:221467/1‑134 (MQ=255)                                                     cggTGCAGTACCTGGTGCTGCTGCAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGAt                                                  <  2:221467/133‑1 (MQ=255)                                                                    tgctgctgcAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTc                                   <  2:183901/134‑1 (MQ=255)                                                                      ctgctgcAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGCgggc                                                                                                                           <  1:695231/45‑2 (MQ=37)                                                                      ctgctgcAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGCgggc                                                                                                                           >  2:695231/1‑44 (MQ=37)                                                                      ctgctgcAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTggg                                                      <  2:620607/113‑1 (MQ=255)                                                                      ctgctgcAC‑AGCCGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTggg                                                      >  1:620607/1‑113 (MQ=255)                                                                              acagccGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCgcgcgcgc                          >  2:661332/5‑134 (MQ=255)                                                                              acagccGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCgcgcgcgc                          >  1:271844/5‑134 (MQ=255)                                                                                agccGGGCGCACCCGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCgcgcgcgc                          >  1:788436/3‑132 (MQ=255)                                                                                           cccGCAGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGc             >  2:517542/1‑134 (MQ=255)                                                                                                aGCTGACGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCCCTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTc        >  2:289377/1‑134 (MQ=255)                                                                                                     aCGCGCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGAGCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAg     <  1:289377/132‑1 (MQ=255)                                                                                                      cgcgCAACGC‑GGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCCACGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAgggg  >  2:955008/1‑134 (MQ=255)                                                                                                                |                                                                                                                             ACCTGTTCGACCTGAAGCACGATCGCGGCGGCATGGTCGATATCGAATTCACGGGTGCAGTACCTGGTGCTGCTGCACAACCCGGGCGCACCCGCAGCTGACGCGCAACGCGGGGCAATATCGCGCTGCTGCGCGCAGCGGGCGAGCTGGGCCTGATCGACGCACCGCTGGCACTGGCGGTGGGCGATGCCTACCGGCTGTTCCGCGCGCGCCAGCACCAGCTGCGGCTCGAGGGG  >  AM260479/1231063‑1231298

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑