Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_007793	2,127,043	T→C	N144N (AAT→AAC)	SAUSA300_RS10835 →	integrase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_007793	2,127,043	0	T	C	100.0%	81.1 / NA	33	N144N (AAT→AAC)	SAUSA300_RS10835	integrase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (29/4);  total (29/4)

AGAACACGCAAAAGAAACTATAAGAAAAACAAACGGTGCTATTCGGTCAGCTTTAGATGACGCATTATATGATGGGCTTATTTTTAAAAATCCCGCTTATAAAGTTAATTATAAAGCCGGAAAACCTACGAAGTCAGAACAAGAAAAATTCATCTCGGTAACTGAATATGAAATACTAAAAGATC  >  NC_007793/2126953‑2127137                                                                                           |                                                                                               aGAACACGCAAAAGAAACTATAAGAAAAACAAACGGTGCTATTCGGTCAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTtat                                                                                       >  1:2694763/1‑100 (MQ=255)  tcacacGCAAAAGAAACTATAAGAAAAACAAACGGTGCTATTCGGTCAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTtata                                                                                      >  1:875872/3‑100 (MQ=255)   tacacGCAAAAGAAACTATAAGAAAAACAAACGGTGCTATTCGGTCAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATaa                                                                                     >  1:1872565/2‑100 (MQ=255)    acacGCAAAAGAAACTATAAGAAAAACAAACGGTGCTATTCGGTCAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATaaa                                                                                    >  1:5695757/1‑100 (MQ=255)    acacGCAAAAGAAACTATAAGAAAAACAAACGGTGCTATTCGGTCAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATaaa                                                                                    >  1:5593644/1‑100 (MQ=255)    acacGCAAAAGAAACTATAAGAAAAACAAACGGTGCTATTCGGTCAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATaaa                                                                                    >  1:818838/1‑100 (MQ=255)    acacGCAAAAGAAACTATAAGAAAAACAAACGGTGCTATTCGGTCAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATaaa                                                                                    >  1:5025640/1‑100 (MQ=255)    acacGCAAAAGAAACTATAAGAAAAACAAACGGTGCTATTCGGACAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATaaa                                                                                    >  1:3773470/1‑100 (MQ=255)     cacGCAAAAGAAACTATAAGAAAAACAAACGGCGCTATTCGGTCAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATAAAg                                                                                   >  1:6020773/1‑100 (MQ=255)                    ataAGAAAAACAAACGGTGCTATTCGGTCAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATAAAGTTAATTATAAAGCCg                                                                    >  1:5890806/1‑100 (MQ=255)                    ataAGAAAAACAAACGGTGCTATTCGGTCAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATAAAGTTAATTATAAAGCCg                                                                    >  1:6542846/1‑100 (MQ=255)                        caaaaaCAAACGGTGCTATTCGGTCAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATAAAGTTAATTATAAAGCCGGaaa                                                                >  1:2527072/2‑100 (MQ=255)                         caccccaaacGGTGCTATCCGGTCAGCTTTAGATGACGCATTATATGCTGGACTTATTTTTAAAAACCCCGCTTATAAAGCTAATTATACAGCCGGaaaa                                                               >  1:4681261/6‑100 (MQ=255)                          aaaaCAAACGGTGCTATTCGGTCAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATAAAGTTAATTATAAAGCCGGAAAAc                                                              >  1:5418968/1‑100 (MQ=255)                           caacaaacGGTGCTATTCGGTCAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATAAAGTTAATTATAAAGCCGGAAAAcc                                                             >  1:6018470/2‑100 (MQ=255)                                cccGGTGCTATTCGGTCAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATAAAGTTAATTATAAAGCCGGAAAACCTACGa                                                        >  1:3493175/3‑100 (MQ=255)                                      gCTATTCGGTCAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATAAAGTTAATTATAAAGCCGGAAAACCTACGAAGTCAg                                                  >  1:5825522/1‑100 (MQ=255)                                      gCTATTCGGTCAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATAAAGTTAATTATAAAGCCGGAAAACCTACGAAGTCAg                                                  >  1:182941/1‑100 (MQ=255)                                            cGGTCAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATAAAGTTAATTATAAAGCCGGAAAACCTACGAAGTCAGAACAAg                                            >  1:6069921/1‑100 (MQ=255)                                              ctCAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATAAAGTTAATTATAAAGCCGGAAAACCTACGAAGTCAGAACAAGaa                                          >  1:5393082/2‑100 (MQ=255)                                                cAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAGCCCCGCTTATAAAGTTAATTATAAAGCCGGAAAACCTACGAAGTCAGAACAAGaaaa                                        >  1:2108485/1‑100 (MQ=255)                                                cAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATAAAGTTAATTATAAAGCCGGAACACCTACGAAGTCAGAACAAGaaaa                                        >  1:2873948/1‑100 (MQ=255)                                                cAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATAAAGTTAATTATAAAGCCGGAAAACCTACGAAGTCAGatcggaagag                                        >  1:5594279/1‑91 (MQ=255)                                                cAGCTTTAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATAAAGTTAATTATAAAGCCGGAAAACCTACGAAGTCAGAACAAGaaaa                                        >  1:1030052/1‑100 (MQ=255)                                                     ttAGATGACGCATTATATGATGGACTTATTTTTAAAAACCCCGCTTATAAAGTTAATTATAAAGCCGGAAAACCTACGAAGTCAGAACAAGAAAAATTCa                                   >  1:4771051/1‑100 (MQ=255)                                                          tGACGCATTATATGATGGACTTATTTTTTAAAACCCCGCTTAAAAGGTTAATAAAAAACCCGCAAAACCTAGGAAGCCAGAACAAGAAAAAtcctcccgg                              >  1:949455/1‑92 (MQ=255)                                                                      tgatgGACTTATTTTTAAAAACCCCGCTTATAAAGTTAATTATAAAGCCGGAAAACCTACGAAGTCAGAACAAGAAAAATTCATCTCGGTAACTGAatat                  <  1:2747062/100‑1 (MQ=255)                                                                       gatgGACTTATTTTTAAAAACCCCGCTTATAAAGTTAATTATAAAGCCGGAAAACCTACGAAGTCAGAACAAGAAAAATTCATCTCGGTAACTGAATATg                 >  1:4683988/1‑100 (MQ=255)                                                                       gatgGACTTATTTTTAAAAACCCCGCTTATAAAGTTAATTATAAAGCCGGAAAACCTACGAAGTCAGAACAAGAAAAATTCATCTCGGTAACTGAATATg                 >  1:296473/1‑100 (MQ=255)                                                                        atgGACTTATTTTTAAAAACCCCGCTTATAAAGTTAATTATAAAGCCGGAAAACCTACGAAGTCAGAACAAGAAAAATTCATCTCGGTAACTGAATATGa                >  1:66770/1‑100 (MQ=255)                                                                                 tttttAAAAACCCCGCTTATAAAGTTAATTATAAAGCCGGAAAACCTACGAAGTCAGAACAAGAAAAATTCATCTCGGTAACTGAATATGAAATACTaaa       <  1:3059095/100‑1 (MQ=255)                                                                                  ttttAAAAACCCCGCTTATAAAGTTAATTATAAAGCCGGAAAACCTACGAAGTCAGAACAAGAAAAATTCATCTCGGTAACTGAATATGAAATACTacta      <  1:2859050/100‑4 (MQ=255)                                                                                      aaaaaCCCCGCTTAGAAAGTTAATTATAAAGCCGGAAAACCTACGAAGTCAGAACAAGAAAAATTCATCTCGGTAACTGAATATGAAATACTAAAAGATc  <  1:4836931/100‑1 (MQ=255)                                                                                           |                                                                                               AGAACACGCAAAAGAAACTATAAGAAAAACAAACGGTGCTATTCGGTCAGCTTTAGATGACGCATTATATGATGGGCTTATTTTTAAAAATCCCGCTTATAAAGTTAATTATAAAGCCGGAAAACCTACGAAGTCAGAACAAGAAAAATTCATCTCGGTAACTGAATATGAAATACTAAAAGATC  >  NC_007793/2126953‑2127137

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑