Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	1	1,479,799	A→G	T204A (ACA→GCA)	unknown →	Flp pilus assembly protein RcpC/CpaB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	1	1,479,799	0	A	G	100.0%	76.6 / NA	28	T204A (ACA→GCA)	unknown	Flp pilus assembly protein RcpC/CpaB
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (19/9);  total (19/9)

TCTCTCCGAACGATCCTAGATTCTTTACATCCAGCCTAGATCCGAATCAAGAAGTTGCATATCGCATCTATGTTAAATCTGGTGATGATTACATTCTAAATACTATTTTAAGTGGAGACTATGTTGCTATCTATAGCCAACAAATTGCTTCAGATTCGCGCAACACTTATGATCGTAAAGATTTAGTTAAAATTTTAGGTAAAGTATTGGTTTTACAAGCAAGAAACTTTACTCAATCAACAGAACAAGGTGCTCCTGAAGCTGAAAAGGCAGCA‑GA‑CGGGATTCCAAACAATCAAGAATATGCTGGTTATGTAGCACTAAAAATAACTGCTGAACAAGCAAAAAAATTCTATTCACTGGATAGAGAATCAAAGTTAGTTATATTACCTGCCGAAAATAATACTCAAGAAGTTGATTCA  >  1/1479560‑1479978                                                                                                                                                                                                                                                |                                                                                                                                                                                      tctctcCGAATGATCCTAGATTCTTTACTTCCAGCTTGAATCCAAGTCAAGAAGTCGCATATCGCATCTATGTTAGATCTGGCGATGATTACATTCTAAATACTATTTTAAGCGGAGACTATGTATCTGTTTATAGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAggc                                                                                                                                                                            <  1:740715/251‑2 (MQ=255)    ctcCGAATGATCCTAGATTCTTTACTTCCAGCTTGAATCCAAGTCAAGAAGTCGCATATCGCATCTATGTTAGATCTGGCGATGATTACATTCTAAATACTATTTTAAGCGGAGACTATGTATCTGTTTATAGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAggca                                                                                                                                                                           >  1:91141/1‑247 (MQ=255)    ctcCGAATGATCCTAGATTCTTTACTTCCAGCTTGAATCCAAGTCAAGAAGTCGCATATCGCATCCATGTTAGATCTGGCGATGATTACATTCTAAATACTATTTTAAGCGGAGACTATGTATCTGTTTATAGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAggca                                                                                                                                                                           >  1:54289/1‑247 (MQ=255)               ccTAGATTCTTTACTTCCAGCTTGAATCCAAGTCAAGAAGTCGCATATCGCATCTATGTTAGATCTGGCGATGATTACATTCTAAATACTATTTTAAGCGGAGACTATGTATCTGTTTATAGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAggcactgaaactgagaa                                                                                                                                                              >  1:167761/1‑236 (MQ=255)                                                                                                 tAAATACTATTTTAAGCGGAGACTATGTATCTGTTTATAGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTc                                                                       <  1:543537/251‑1 (MQ=255)                                                                                                 tAAATACTATTTTAAGCGGAGACTATGTATCTGTTTATAGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTc                                                                       <  1:2960/251‑1 (MQ=255)                                                                                                         aTTTTAAGCGGAGACTATGTATCTGTTTATAGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTA‑GATCTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTCTATTCa                                                                 >  1:448427/1‑249 (MQ=255)                                                                                                         aTTTTAAGCGGAGACTATGTATCTGTTTATAGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTA‑GATCTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTCTATTCa                                                                 >  1:454188/1‑249 (MQ=255)                                                                                                                 cggAGACTATGTATCTGTTTATAGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTCTATTCACTGGATagag                                                       <  1:885580/250‑1 (MQ=255)                                                                                                                   gagaCTATGTATCTGTTTATAGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTGTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTCTATTCACTGGATAgaga                                                      <  1:453155/250‑1 (MQ=255)                                                                                                                     gactatgtatctgtttataGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTc                                                                       >  1:279359/16‑231 (MQ=255)                                                                                                                       ctatgtatctgtttataGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTCTATTCACTGGAt                                                           <  1:459579/228‑1 (MQ=255)                                                                                                                       ctatgtatctgtttataGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTCTATTCACTGGATAGAGAATcga                                                 >  1:773401/14‑249 (MQ=255)                                                                                                                       ctatgtatctgtttataGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTCTATTCACTGGATAGAGAATcga                                                 >  1:62278/14‑249 (MQ=255)                                                                                                                       ctatgtatctgtttataGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTCTATTCACTGGATAGAGAATcga                                                 >  1:479787/14‑249 (MQ=255)                                                                                                                       ctatgtatctgtttataGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTCTATTCACTGGATAGAGAATcga                                                 >  1:894938/14‑249 (MQ=255)                                                                                                                         atgtatctgtttataGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTCTATTCACTGGATAGAGAATCGAag                                               <  1:551970/240‑1 (MQ=255)                                                                                                                         atgtatctgtttataGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTCTATTCACTGGATAGAGAATCGAag                                               >  1:780671/12‑251 (MQ=255)                                                                                                                           gtatctgtttataGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTCTATTCACTGGATAGAGAATCGAagtt                                             >  1:606079/10‑251 (MQ=255)                                                                                                                                 gtttataGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTCTATTCACTGGATAGAGAATCGAagttagtcat                                       >  1:464845/4‑248 (MQ=255)                                                                                                                                 gtttataGCCAGCAAACCGCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTCTATTCACTGGATAGAGAATCGAagttagtcat                                       >  1:877339/4‑248 (MQ=255)                                                                                                                                           agcaaaccgCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTCTATTCACTGGATAgaga                                                      >  1:445055/9‑226 (MQ=255)                                                                                                                                                 ccgCTTCAGATTCCCGCAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTCTATTCACTGGATAGAGAATCGAAGTTAGTCATATTACCTGTCGAAaat                       <  1:725284/249‑1 (MQ=255)                                                                                                                                                             cccgcAATACTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAAAAAGCTAAAAAATTCTATTc                                                                  >  1:63357/3‑196 (MQ=255)                                                                                                                                                                 caatacTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTCTATTCACTGGATAGAGAATCGAAGTTAGTCATATTACCTGTCGAAAATAATACTCAAGAAGTTg       >  1:410931/5‑251 (MQ=255)                                                                                                                                                                   atacTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTCTATTCACTGGATAGAGAAt                                                    <  1:857967/202‑1 (MQ=255)                                                                                                                                                                     acTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACGAGCTAAAAAATTCTATTCACTGGATagag                                                       >  1:454210/1‑199 (MQ=255)                                                                                                                                                                      cTTATGATCGTAAAGATTTAGTTAAAGTTTTAGGTAAGGCAGTGGTTCTACAAGCACGGAATTTTGCTCAAGTAGCAGAACAAG‑‑GC‑ACTGAAACTGAGAAAGCGTTAGGT‑CTGG‑CTCCAAATAGTGAAGTATATGCCGGTTATGTAGCATTAAAAATAACTGCTGAACAAGCTAAAAAATTCTATTCACTGGATAGAGAATCGAAGTTAGTCATATTGCCTGTCGAAAATAATACTCAAGAAGTTGATTCa  >  1:108817/1‑251 (MQ=255)                                                                                                                                                                                                                                                |                                                                                                                                                                                      TCTCTCCGAACGATCCTAGATTCTTTACATCCAGCCTAGATCCGAATCAAGAAGTTGCATATCGCATCTATGTTAAATCTGGTGATGATTACATTCTAAATACTATTTTAAGTGGAGACTATGTTGCTATCTATAGCCAACAAATTGCTTCAGATTCGCGCAACACTTATGATCGTAAAGATTTAGTTAAAATTTTAGGTAAAGTATTGGTTTTACAAGCAAGAAACTTTACTCAATCAACAGAACAAGGTGCTCCTGAAGCTGAAAAGGCAGCA‑GA‑CGGGATTCCAAACAATCAAGAATATGCTGGTTATGTAGCACTAAAAATAACTGCTGAACAAGCAAAAAAATTCTATTCACTGGATAGAGAATCAAAGTTAGTTATATTACCTGCCGAAAATAATACTCAAGAAGTTGATTCA  >  1/1479560‑1479978

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑