Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP009273	2,650,556	G→T	21.4%	A580D (GCC→GAC)	hscA ←	DnaK‑like molecular chaperone specific for IscU

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP009273	2,650,556	0	G	T	21.4%	31.6 / 5.2	22	A580D (GCC→GAC)	hscA	DnaK‑like molecular chaperone specific for IscU
Reads supporting (aligned to +/- strand):  ref base G (11/6);  new base T (2/3);  total (13/9)
Fisher's exact test for biased strand distribution p-value = 6.09e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.38e-01

GGTGGTGCAAGCACAGGATTTTTCACAGGCGTGTTCAATCTCGATACCGTTACGCAGAGCTGCGTCGAGAATGGTTTCACCGCTATTAGCTTCCAGAACAGCGCCATCAGGGCAGAGATCCTGATGAGGCAAAATAACAATCTTTGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGGCGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCGGCATCAGCAGCCAGCGCGCCGTGCAGACTTTCCAGCACACGCGCCGCTTCTACTTTTTGTTCTGCCAGCATTCGGGCTTTTACGTCCTGCTCGGCATAGCTCATTGAGTCTTTGATCATCGAAGCGATTTCGCT  >  CP009273/2650293‑2650776                                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                             ggtggtGCACGCACAGGATTTTTCACAGGCGTGTTCAATCTCGATACCGTTACGCAGAGCTGCGTCGAGAATGGTTTCACCGCTATTAGCTTCCAGAACAGCGCCATCAGGGCAGAGATCCTGATGAGGCAAAATAACAATCTTTGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGCAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGGCTTCacctt                                                                                                                                                                                                                     >  2:166229/1‑269 (MQ=255)                                tgtTCAATCTCGATACCGTTACGCAGAGCTGCGTCGAGAATGGTTTCACCGCTATTAGCTTCCAGAACAGCGCCATCAGGGCAGAGATCCTGATGAGGCAAAATAACAATCTTTGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGAGTTTGTTTGTCTCCGTTTTTAATCGCTTGTTCGATGGCGTCAACATCATCGCCCTGAGCCACTTCACTAAGCTGAGCgc                                                                                                                                                                                    >  1:391912/1‑274 (MQ=255)                                  ttCAATCTCGATACCGTTACGCAGAGCTGCGTCGAGAATGGTTTCACCGCTATTAGCTTCCAGAACAGCGCCATCAGGGCAGAGATCCTGATGAGGCAAAATAACAATCTTTGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCCTGCGGCGAGCGGCGACATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGGCGACAACATCATCCCCCTGCGCCCCTTCACTCAGCTGAGCGgc                                                                                                                                                                                   >  1:254244/1‑274 (MQ=255)                                                               cGTCGAGAATGGTTTCACCGCTATTAGCTTCCAGAACAGCGCCATCAGGGCAGAGATCCTGATGAGGCAAAATAACAATCTTTGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGGCg                                                                                                                                                                                                                            >  2:80025/1‑204 (MQ=255)                                                                   gagaATGGTTTCACCGCTATTAGCTTCCAGAACAGCGCCATCAGGGCAGAGATCCTGATGAGGCAAAATAACAATCTTTGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGGCGTCaa                                                                                                                                                                                                                        <  1:80028/204‑1 (MQ=255)                                                                                                         cATCAGGGCAGAGATCCTGATGAGGCAAAATAACAATCTTTGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGGCGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCGGCATCAGCAGCCAGCGCGCCGTGCAGa                                                                                                             <  1:166234/273‑1 (MQ=255)                                                                                                                                 gCAAAATAACAATCTTTGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGGCGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCGGCATCAGCAGCCAGCGCGCCGTGCAGACTTTCCAGCACACGCGCCGCTTCTa                                                                                    >  1:242582/1‑274 (MQ=255)                                                                                                                                                         tAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGGCg                                                                                                                                                                                                                            >  1:234470/1‑114 (MQ=255)                                                                                                                                                             ccTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGGCGTCaa                                                                                                                                                                                                                        <  2:234465/114‑1 (MQ=255)                                                                                                                                                                       tgAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGTCGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCGGCATCAGCAGCCAGCGCGCCGTGCAGACTTTCCAGCACACGCGCCGCTTCTACTTTTTGTTCTGCCAGCATTCGGGCTTTTACGTCCTGCt                                             <  1:227399/274‑1 (MQ=255)                                                                                                                                                                        tgataagagataggcgcgcGGCGAAGCGGCTGTTCCCTGCGGCGGGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGGCGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCGGCATCAGCAGCCAGCGCGCCGTGCAGACTTTCCAGCACACGCGCCGCTTCTACTTTTTGTTCTGCCAGCATTCGGGCTTTTACGTCCTGCt                                             <  2:288038/261‑1 (MQ=255)                                                                                                                                                                           tGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGGCGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGATCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCGGCATCAGcagcca                                                                                                                           >  1:104006/1‑193 (MQ=255)                                                                                                                                                                                                aCCGACTGGTCCATGCGGCGATCAACGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGGCGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCGGCATCAGCAGCCAGCGCGCCGTGCNGACTTTCCAGCACACGCGCCGCTTCTACTTTTTGTTCTGCCAGCATTCGGGCTTTTACGTcc                                                 >  1:288044/1‑246 (MQ=255)                                                                                                                                                                                                aCCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGTCGTCAACATCATCGccc                                                                                                                                                                                                             >  2:255427/1‑90 (MQ=255)                                                                                                                                                                                                    aCTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGTCGTCAACATCATCGCCCTgcg                                                                                                                                                                                                         <  1:255432/90‑1 (MQ=255)                                                                                                                                                                                                                  cgagcggcgaAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGGCGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCGGCATCAGCAGCCAGCGCGCCGTGCAGACTTTCCAGCACACGCGCCGCTTCTACTTTTTGTTCTGCCAGCATTCGGGCTTTTACGTCCTGCTCGGCATAGCTCATTGAGTCTTTGATCATCGAAGCGATTTCGCt  >  1:230826/1‑275 (MQ=255)                                                                                                                                                                                                                                   ggTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGTCGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCGGCATCAGCAGCCAGCGCGCCGTGCAGACTTTCCAGCACACGCGCCGCTTCTACTTTTTGTTCTGCCAGCATTCGGGCTTTTACGTcc                                                 >  2:330075/1‑211 (MQ=255)                                                                                                                                                                                                                                       tgtttgtCTACGTTTTTAATCGCTTGTTCGATGTCGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCGGCATCAGCAGCCAGCGCGCCGTGCAGACTTTCCAGCACACGCGCCGCTTCTACTTTTTGTTCTGCCAGCATTCGGGCTTTTACGTCCTGCt                                             <  1:330081/211‑1 (MQ=255)                                                                                                                                                                                                                                                         aTCGCTTGTTCGATGGCGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCACCATCGTCAATGACCTGACGTACTACACCGCTTCACAGCTCGACATCAGCAGCCAGCGCGCCGTGCAGCCt                                                                                                           >  1:187987/1‑131 (MQ=255)                                                                                                                                                                                                                                                             ctggTTCGATGGCGTCAACATCACCGACCTGCGCAACTTCACGCAGGTGAGCGGCAGCAGCGTCAATGACCTGACGTTTAGCGGCGCTTAACAGCGCGGCATCATCAGCCAGCGCGCCGTGCAGATTTTcc                                                                                                       <  2:187982/128‑1 (MQ=255)                                                                                                                                                                                                                                                              ttGTTCGATGGCGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCg                                                                                                                                                                                     >  1:205141/1‑52 (MQ=255)                                                                                                                                                                                                                                                                  tCGATGGCGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGgcag                                                                                                                                                                                 <  2:205136/52‑1 (MQ=255)                                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                             GGTGGTGCAAGCACAGGATTTTTCACAGGCGTGTTCAATCTCGATACCGTTACGCAGAGCTGCGTCGAGAATGGTTTCACCGCTATTAGCTTCCAGAACAGCGCCATCAGGGCAGAGATCCTGATGAGGCAAAATAACAATCTTTGGCATATTAAACCTCGTCCACGGAATGGCCTTTCAGCGCACGACGAACCGACTGGTCCATGCGGCGAGCGGCGAAATCCTGGGTTTGTTTGTCTACGTTTTTAATCGCTTGTTCGATGGCGTCAACATCATCGCCCTGCGCCACTTCACTCAGGTGAGCGGCAGCATCGTCAATGACCTGACGTTCTGCGGCGCTTAACAGCGCGGCATCAGCAGCCAGCGCGCCGTGCAGACTTTCCAGCACACGCGCCGCTTCTACTTTTTGTTCTGCCAGCATTCGGGCTTTTACGTCCTGCTCGGCATAGCTCATTGAGTCTTTGATCATCGAAGCGATTTCGCT  >  CP009273/2650293‑2650776

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑