Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	AM260479	3,615,716	+C	intergenic (+42/‑147)	prfA → / → h16_A3341	protein chain release factor A (RF‑1)/Hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	AM260479	3,615,715	1	.	C	100.0%	121.0 / NA	32	intergenic (+41/‑148)	prfA/h16_A3341	protein chain release factor A (RF‑1)/Hypothetical protein
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base C (15/17);  total (15/17)

GATCATGGACGGCGACATGGATGAGCTGCTGTCGGCACTGGCTTCGGAACACCAGGCTGATCAGCTTGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACA‑CGCGT‑AAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAACAGCACTGGTAGGGGTAAGGCGGCTGTCTATAATCGATTTCGACCGGCAAACGGAGAATGGTGCCGGGTA  >  AM260479/3615584‑3615830                                                                                                                                     |                                                                                                                     gATCATGGACGGCGACATGGATGAGCTGCTGTCGGCACTGGCTTCGGAACACCAGGCTGATCAGCTTGCTGCACTTGGCGAAGAGTCGT‑AGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAaca‑ccg                                                                                                                   >  1:339450/1‑132 (MQ=255)                cATGGATGAGCTGCTGTCGGCACTGGCTTCGGAACACCAGGCTGATCAGCTTGCTGCACTTGGCGAAGAGTCGT‑AGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGat                                                                                                     <  2:339450/134‑1 (MQ=255)                 aTGGATGAGCTGCTGTCGGCACTGGCTTCGGAACACCAGGCTGATCAGCTTGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAaca‑ccgcgt                                                                                                                <  2:202543/122‑6 (MQ=255)                 aTGGATGAGCTGCTGTCGGCACTGGCTTCGGAACACCAGGCTGATCAGCTTGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAaca‑ccgcgt                                                                                                                >  1:202543/1‑117 (MQ=255)                 aTGGATGAGCTGCTGTCGGCACTGGCTTCGGAACACCAGGCTGATCAGCTTGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGcc                                                                                                        >  1:103432/1‑131 (MQ=255)                 aTGGATGAGCTGCTGTCGGCACTGGCTTCGGAACACCAGGCTGATCAGCTTGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGcc                                                                                                        <  2:103432/131‑1 (MQ=255)                 aTGGATGAGCTGCTGTCGGCACTGGCTTCGGAACACCAGGCTGATCAGCTTGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGa                                                                                                      >  1:613632/1‑133 (MQ=255)                      tGAGCTGCTGTCGGCACTGGCTTCGGAACACCAGGCTGATCAGCTTGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCtt                                                                                                <  2:26574/134‑1 (MQ=255)                                          cTTCGGAACACCAGGCTGATCAGCTTGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCtt                                                                            <  1:572480/134‑1 (MQ=255)                                           ttCGGAACACCAGGCTGATCAGCTTGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCtt                                                                            >  2:177612/1‑133 (MQ=255)                                               gAACACCAGGCTGATCAGCTTGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAAc                                                                       <  1:177612/134‑1 (MQ=255)                                                    ccAGGCTGATCAGCTTGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAACAGCAc                                                                  <  2:613632/134‑1 (MQ=255)                                                             tCAGCTTGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAACAGCACTGGTAgggg                                                         >  1:447192/1‑134 (MQ=255)                                                              cAGCTTGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAaca‑c                                                                                                                     <  2:823075/72‑1 (MQ=255)                                                              cAGCTTGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAaca‑c                                                                                                                     >  1:823075/1‑72 (MQ=255)                                                                 cTTGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCtt                                                                                      >  2:301798/1‑101 (MQ=255)                                                                 cTTGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCtt                                                                                      <  1:301798/101‑1 (MQ=255)                                                                 cTTGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAACAGCACTGGTAGGGGTAAg                                                     <  1:88278/134‑1 (MQ=255)                                                                  ttGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGaaa                                                                        <  1:310455/114‑1 (MQ=255)                                                                  ttGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGaaa                                                                        >  2:310455/1‑114 (MQ=255)                                                                          cTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAACAGCACTGGTAGGGGTAAGGCGGCTGTc                                            >  1:467598/1‑134 (MQ=255)                                                                          cTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAACAGCACTGGTAGGGGTAAGGCGGCTGTc                                            >  2:282451/1‑134 (MQ=255)                                                                               cGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAACAGCACTGGTAGGGGTAAg                                                     >  2:927935/1‑120 (MQ=255)                                                                               cGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAACAGCACTGGTAGGGGTAAg                                                     <  1:927935/120‑1 (MQ=255)                                                                                 aaGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGaaa                                                                        <  2:288831/99‑1 (MQ=255)                                                                                 aaGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGaaa                                                                        >  1:288831/1‑99 (MQ=255)                                                                                   gagTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAACAGCACTGGTAGGGGTAAGGCGGCTGTCTATAATCGa                                   >  2:795597/1‑134 (MQ=255)                                                                                            gCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAACAGCACTGGTAGGGGTAAGGCGGCTGTCTATAATCGATTTCGACCg                          <  1:795597/134‑1 (MQ=255)                                                                                                              cAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAACAGCACTGGTAGGGGTAAggc                                                   >  2:1058120/1‑91 (MQ=255)                                                                                                              cAACCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAACAGCACTGGTAGGGGTAAggc                                                   <  1:1058120/91‑1 (MQ=255)                                                                                                                aCCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAACAGCAc                                                                  >  2:242343/1‑74 (MQ=255)                                                                                                                aCCGGCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAACAGCAc                                                                  <  1:242343/74‑1 (MQ=255)                                                                                                                    gCCTTCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAACAGCACTGGTAGGGGTAAGGCGGCTGTCTATAATCGATTTCGACCGGCAAACGGAGAATGGTGCCGGGTa  <  1:282451/134‑1 (MQ=255)                                                                                                                       ttCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAAc                                                                       <  2:239325/62‑1 (MQ=255)                                                                                                                       ttCCGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAAc                                                                       >  1:239325/1‑62 (MQ=255)                                                                                                                          cGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAACAGCACTGGTAGGGGTAAGGCGGCTGTCTATAATCGATTTCGACCg                          <  1:334585/104‑1 (MQ=255)                                                                                                                          cGCCCCGAACACCGCGTAAAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAACAGCACTGGTAGGGGTAAGGCGGCTGTCTATAATCGATTTCGACCg                          >  2:334585/1‑104 (MQ=255)                                                                                                                                     |                                                                                                                     GATCATGGACGGCGACATGGATGAGCTGCTGTCGGCACTGGCTTCGGAACACCAGGCTGATCAGCTTGCTGCACTTGGCGAAGAGTCGTAAGCACCACAAAATGTCGTGCAACCGGCCTTCCGCCCCGAACA‑CGCGT‑AAGTCGCCGATATCTTTGTATTTCTTGTAAATGCTTGAAACAGCACTGGTAGGGGTAAGGCGGCTGTCTATAATCGATTTCGACCGGCAAACGGAGAATGGTGCCGGGTA  >  AM260479/3615584‑3615830

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑