Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	1	1,031,557	G→T	intergenic (‑354/‑57)	unknown ← / → unknown	hypothetical protein/Repressor protein CI

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	1	1,031,557	0	G	T	100.0%	44.3 / NA	18	intergenic (‑354/‑57)	unknown/unknown	hypothetical protein/Repressor protein CI
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (12/6);  total (12/6)

CTCATGTAACTCGTAAACAATCCGCTTTCTACTCCAATCCTTTTTTTTCATAGTTCCTCGCTTTTGCATTTGAATAATTTAAAGATTAGGTTAAACTTGGGTGTAAATCTTTAGTCTTACCCCTTAGCGTTAAACTTAGTTTAAACTAAGTTTAAAACCAAAGTCAACAATAGTTTAAATAAAAATTTTGTAAAACTTATGTAAAGAAATTTATTTTTGTTTAAATCAATACGTTAAGAGGTATTGTAAATTAAACTTAGTTTTAATCCTTGGTTTAAAACTAGGAGGTTAGATATGATCCGAGAGTGGCTAGAACTGAAAGACCTTTTGGGAGTAGCTGGACTACCAGAAACTGTTCAAGGGGTAACTAAAAAAGCCAAATTAGAAAACTGGGAAAGACGACTTATAAAAGGAAGAAAAGGGAAAACATACGAATACCATTATTTATCCATGCCTTACGAGGTGCAGCGCGCCCTAGGCTTT  >  1/1031320‑1031802                                                                                                                                                                                                                                              |                                                                                                                                                                                                                                                      gtaatgtttcgctcatgtaactcgtaaacaatccgctttctactccaatccttttttttcatagttcctcgcttttgcatttgaataatttaaagattaggttaaacttgggtgtaaatctttagtcttaccccttagcgttaaacttagtttaaacCTAAAGTCAACAATAGTTTAAATAAAAATTTTGTAAAACTTATGTAAAGAAATTTATTTTTATTTAAATCAATACGTTAATAGGTATTGTAAAt                                                                                                                                                                                                                                          >  1:741275‑M2/158‑251 (MQ=255)                               atccgctttctactccaatccttttttttcatagttcctcgcttttgcatttgaataatttaaagattaggttaaacttgggtgtaaatctttagtcttaccccttagcgttaaacttagtttaaacCTAAAGTCAACAATAGTTTAAATAAAAATTTTGTAAAACTTATGTAAAGAAATTTATTTTTATTTAAATCAATACGTTAATAGGTATTGTAAATTAAACTTAGTTTTAATCCTTGGTTTAAAAc                                                                                                                                                                                                            <  1:142910‑M2/124‑1 (MQ=255)                                                           tcatagttcctcgcttttgcatttgaataatttaaagattaggttaaacttgggtgtaaatctttagtcttaccccttagcgttaaacttagtttaaacCTAAAGTCAACAATAGTTTAAATAAAAATTTTGTAAAACTTATGTAAAGAAATTTATTTTTATTTAAATCAATACGTTAATAGGTATTGTAAATTAAACTTAGTTTTAATCCTTGGTTTAAAACTAGGAGGTTAGATATGATCCGagag                                                                                                                                                                                   <  1:258807‑M2/149‑1 (MQ=255)                                                                                tttgaataatttaaagattaggttaaacttgggtgtaaatctttagtcttaccccttagcgttaaacttagtttaaacCTAAAGTCAACAATAGTTTAAATAAAAATTTTGTAAAACTTATGTAAAGAAATTTATTTTTATTTAAATCAATACGTTAATAGGTATTGTAAATTAAACTTAGTTTTAATCCTTGGTTTAAAACTAGGAGGTTAGATATGATCCGAGAGTGGCTAGAACTGAAAGACCTTTTg                                                                                                                                                           >  1:364573‑M2/79‑251 (MQ=255)                                                                                                                             gtcttaccccttagcgttaaacttagtttaaacCTAAAGTCAACAATAGTTTAAATAAAAATTTTGTAAAACTTATGTAAAGAAATTTATTTTTATTTAAATCAATACGTTAATAGGTATTGTaaa                                                                                                                                                                                                                                           >  1:174772‑M2/34‑126 (MQ=255)                                                                                                                             gtcttaccccttagcgttaaacttagtttaaacCTAAAGTCAACAATAGTTTAAATAAAAATTTTGTAAAACTTATGTAAAGAAATTTATTTTTATTTAAATCAATACGTTAATAGGTATTGTAAATTAAACTTAGttt                                                                                                                                                                                                                              >  1:900553‑M2/34‑139 (MQ=255)                                                                                                                             gtcttaccccttagcgttaaacttagtttaaacCTAAAGTCAACAATAGTTTAAATAAAAATTTTGTAAAACTTATGTAAAGAAATTTATTTTTATTTAAATCAATACGTTAATAGGTATTGTAAATTAAACTTAGTTTTAATCCTTGGTTTAAAACTAGGAGGTTAGATATGATCCGAGAGTGGCTAGAACTGAAAGACCTTTTGGGAGTAGCTGGACTACCAGAAACTGTTCAAGGGGTAACTaaaaaa                                                                                                              >  1:299749‑M2/34‑251 (MQ=255)                                                                                                                                   ccccttagcgttaaacttagtttaaacCTAAAGTCAACAATAGTTTAAATAAAAATTTTGTAAAACTTATGTAAAGAAATTTATTTTTATTTAAATCAATACGTTAATAGGTATTGTAAATTAAACTTAGTTTTAATCCTTGGTTTAAAACTAGGAGGTTAGATATGATCCGAGAGTGGCTAGAACTGAAAGACCTTTTGGGAGTAGCTGGACTACCAGAAACTGTTCAAGGGGTAACTAAAAAAGCCaaa                                                                                                        >  1:101781‑M2/28‑251 (MQ=255)                                                                                                                                                    tagtttaaacCTAAAGTCAACAATAGTTTAAATAAAAATTTTGTAAAACTTATGTAAAGAAATTTATTTTTATTTAAATCAATACGTTAATAGGTATTGTAAATTAAACTTAGTTTTAATCCTTGGTTTAAAACTAGGAGGTTAGATATGATCCGAGAGTGGCTAGAACTGAAAGACCTTTTGGGAGTAGCTGGACTACCAGAAACTGTTCAAGGGGTAACTAAAAAAGCCAAATTAGAAAACTGGGAAAg                                                                                       <  1:117822‑M2/241‑1 (MQ=255)                                                                                                                                                           aacCTAAAGTCAACAATAGTTTAAATAAAAATTTTGTAAAACTTATGTAAAGAAATTTATTTTTATTTAAATCAATACGTTAATAGGTATTGTAAATTAAACTTAGTTTTAATCCTTGGTTTAAAACTAGGAGGTTAGATATGATCCGAGAGTGGCTAGAACTGAAAGACCTTTTGGGAGTAGCTGGACTACCAGAAACTGTTCAAGGGGTAACTAAAAAAGCCAAATTAGAAAACTGGGAAAGACGACtt                                                                                >  1:486843‑M2/4‑251 (MQ=255)                                                                                                                                                             cctaaaGTCAACAATAGTTTAAATAAAAATTTTGTAAAACTTATGTAAAGAAATTTATTTTTATTTAAATCAATACGTTAATAGGTATTGTAAATTAAACTTAGTTTTAATCCTTGGTTTAAAACTAGGAGGTTAGATATGATCCGAGAGTGGCTAGAACTGAAAGACCTTTTGGGAGTAGCTGGACTACCAGAAACTGTTCAAGGGGTAACTAAAAAAGCCAAATTAGAAAACTGGGAAAGACGACTtat                                                                              >  1:279325/4‑251 (MQ=255)                                                                                                                                                                     caacaaTAGTTTAAATAAAAATTTTGTAAAACTTATGTAAAGAAATTTATTTTTATTTAAATCAATACGTTAATAgg                                                                                                                                                                                                                                                    <  1:136129/77‑1 (MQ=255)                                                                                                                                                                     caacaaTAGTTTAAATAAAAATTTTGTAAAACTTATGTAAAGAAATTTATTTTTATTTAAATCAATACGTTAATAGGTATTGTAAATTAAACTTAGTTTTAATCCTTGGTTTAAAACTAGGAGGTTAGATATGATCCGAGAGTGGCTAGAACTGAAAGACCTTTTGGGAGTAGCTGGACTACCAGAAAc                                                                                                                                    >  1:553724/1‑189 (MQ=255)                                                                                                                                                                                              gTAAAACTTATGTAAAGAAATTTATTTTTATTTAAATCAATACGTTAATAGGTATTGTAAATTAAACTTAGTTTTAATCCTTGGTTTAAAACTAGGAGGTTAGATATGATCCGAGAGTGGCTAGAACTGAAAGACCTTTTGGGAGTAGCTGGACTACCAGAAACTGTTCAAGGGGTAACTAAAAAAGCCAAATTAGAAAACTGGGAAAGACGACTTATAAAAGGAAGAAAAGGGAAAACATACGAATACCa                                             >  1:543137/1‑251 (MQ=255)                                                                                                                                                                                                                                       aCGTTAATAGGTATTGTAAATTAAACTTAGTTTTAATCCTTGGTTTAAAACTAGGAGGTTAGATATGATCCGAGAGTGGCTAGAACTGAAAGACCTTTTGGGAGTAGCTGGACTACCAGAAACTGTTCAAGGGGTAACTAAAAAAGCCAAATTAGAAAACTGGGAAAGACGACTTATAAAAGGAAGAAAAGGGAAAACATACGAATACCATTATTTATCCATGCCTTACGAGGTGCAGCGCGCCCTAgg      >  1:256132/1‑249 (MQ=255)                                                                                                                                                                                                                                        cGTTAATAGGTATTGTAAATCAAACTTAGTTTTAATCCTTGGTTTAAAACTAGGAGGTTAGATATGATCCGAGAGTGGCTAGAACTGAAAGACCTTTTGGGAGTAGCTGGACTACCAGAAAc                                                                                                                                    <  1:249824/122‑1 (MQ=255)                                                                                                                                                                                                                                         gTTAATAGGTATTGTAAATTAAACTTAGTTTTAATCCTTGGTTTAAAACTAGGAGGTTAGATATGATCCGAGAGTGGCTAGAACTGAAAGACCTTTTGGGAGTAGCTGGACTACCAGAAACTGTTCAAGGGGTAACTAAAAAAGCCAAATTAGAAAACTGGGAAAGACGACTTATAAAAGGAAGAAAAGGGAAAAc                                                         <  1:239984/196‑1 (MQ=255)                                                                                                                                                                                                                                         gTTAATAGGTATTGTAAATTAAACTTAGTTTTAATCCTTGGTTTAAAACTAGGAGGTTAGATATGATCCGAGAGTGGCTAGAACTGAAAGACCTTTTGGGAGTAGCTGGACTACCAGAAACTGTTCAAGGGGTAACTAAAAAAGCCAAATTAGAAAACTGGGAAAGACGACTTATAAAAGGAAGAAAAGGGAAAACATACGAATACCATTATTTATCCATGCCTTACGAGGTGCAGCGCGCCCTAGGCttt  >  1:902023/1‑251 (MQ=255)                                                                                                                                                                                                                                              |                                                                                                                                                                                                                                                      CTCATGTAACTCGTAAACAATCCGCTTTCTACTCCAATCCTTTTTTTTCATAGTTCCTCGCTTTTGCATTTGAATAATTTAAAGATTAGGTTAAACTTGGGTGTAAATCTTTAGTCTTACCCCTTAGCGTTAAACTTAGTTTAAACTAAGTTTAAAACCAAAGTCAACAATAGTTTAAATAAAAATTTTGTAAAACTTATGTAAAGAAATTTATTTTTGTTTAAATCAATACGTTAAGAGGTATTGTAAATTAAACTTAGTTTTAATCCTTGGTTTAAAACTAGGAGGTTAGATATGATCCGAGAGTGGCTAGAACTGAAAGACCTTTTGGGAGTAGCTGGACTACCAGAAACTGTTCAAGGGGTAACTAAAAAAGCCAAATTAGAAAACTGGGAAAGACGACTTATAAAAGGAAGAAAAGGGAAAACATACGAATACCATTATTTATCCATGCCTTACGAGGTGCAGCGCGCCCTAGGCTTT  >  1/1031320‑1031802

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑