Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP006881	3,724,849	A→T	intergenic (‑23/+17)	U712_19200 ← / ← U712_19205	SacPA operon antiterminator/Uncharacterized protein ywcI

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP006881	3,724,849	0	A	T	100.0%	150.5 / NA	46	intergenic (‑23/+17)	U712_19200/U712_19205	SacPA operon antiterminator/Uncharacterized protein ywcI
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (24/22);  total (24/22)

TGAGGTCATTTTTCTTTTTTTGAAAAGCGATTCCTGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAGTACTTTATAGATTTTCAAGAGGCTATCTCTCCCGCCAATTAGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCAGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTTATAAAGCGCGGCGGCTTTCGCTT  >  CP006881/3724715‑3724975                                                                                                                                       |                                                                                                                               tGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCtt                                                                                                                            >  3:242064/1‑139 (MQ=255) tGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCtt                                                                                                                            >  7:218017/1‑139 (MQ=255) tGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCtt                                                                                                                            >  7:142212/1‑139 (MQ=255)      tCATTTTTCTTTTTTTTAAAAGCGATTCCAGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGAc                                                                                                                       <  1:303855/139‑1 (MQ=255)        aTTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACt                                                                                                                      <  8:315920/138‑1 (MQ=255)          ttttCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTggg                                                                                                                   >  6:284198/1‑139 (MQ=255)                  ttttGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTAc                                                                                                            <  8:330972/138‑1 (MQ=255)                  ttttGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTAc                                                                                                            <  7:142978/138‑1 (MQ=255)                   tttGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTAc                                                                                                            >  6:30200/1‑137 (MQ=255)                   tttGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTAc                                                                                                            <  5:30200/137‑1 (MQ=255)                              aTTCCCGGTCCCATCACGAATTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCg                                                                                               <  2:326475/139‑1 (MQ=255)                                      tCCCCTCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTaa                                                                                       <  4:233276/139‑1 (MQ=255)                                         cATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTa                                                                                        >  3:170764/1‑135 (MQ=255)                                           tCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATg                                                                                  <  5:327533/139‑1 (MQ=255)                                                aTTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGc                                                                             <  4:242064/139‑1 (MQ=255)                                                    tttCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGcccg                                                                          <  8:218017/138‑3 (MQ=255)                                                      tCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTTACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGct                                                                        <  5:252219/138‑1 (MQ=255)                                                      tCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGct                                                                        <  2:50303/138‑1 (MQ=255)                                                                       tattaAAGCCGCATTGTTGTTTAATACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGa                                                       <  1:154053/138‑1 (MQ=255)                                                                                            taatACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACAt                                 >  3:323942/4‑139 (MQ=255)                                                                                            taatACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACAt                                 >  4:163873/4‑139 (MQ=255)                                                                                              atACTTTATAGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACAtc                                <  6:300405/137‑1 (MQ=255)                                                                                                    tataGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCttt                          >  8:27863/1‑138 (MQ=255)                                                                                                    tataGATTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCttt                          >  5:307750/1‑138 (MQ=255)                                                                                                         aTTTTCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTtata                      >  3:193924/1‑137 (MQ=255)                                                                                                           tttCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCGTTTTGACCGcc                                                                                             <  1:72556/64‑1 (MQ=255)                                                                                                           tttCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGcc                                                                                             >  2:72556/1‑64 (MQ=255)                                                                                                           tttCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTTATAAAgc                  >  8:299354/1‑139 (MQ=255)                                                                                                           tttCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTTATAAAgc                  >  6:89738/1‑139 (MQ=255)                                                                                                           tttCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTATTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGAGATTCCTTGAAGGCTTGCAAACATCTACTTATATAAAgc                  >  2:264205/1‑139 (MQ=255)                                                                                                            ttCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTtata                      >  3:229165/1‑134 (MQ=255)                                                                                                            ttCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTtata                      <  4:229165/134‑1 (MQ=255)                                                                                                            ttCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTtata                      >  1:29918/1‑134 (MQ=255)                                                                                                            ttCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTtata                      <  2:29918/134‑1 (MQ=255)                                                                                                            ttCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTTATAAAgcg                 >  3:73724/1‑139 (MQ=255)                                                                                                            ttCAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTTATAAAgcg                 >  2:40383/1‑139 (MQ=255)                                                                                                              cAAGAGGTTATCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCGTTGAAGGCTTGCAAACATCTTCTTTTATAAAGcgcg               >  2:241373/1‑139 (MQ=255)                                                                                                                       aTCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATg                                                                                  >  2:172986/1‑63 (MQ=255)                                                                                                                       aTCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATg                                                                                  <  1:172986/63‑1 (MQ=255)                                                                                                                       aTCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGct                                                                        <  7:229603/73‑1 (MQ=255)                                                                                                                       aTCTCTCCCGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGct                                                                        >  8:229603/1‑73 (MQ=255)                                                                                                                             cccGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATg                                                                                  <  2:15729/57‑1 (MQ=255)                                                                                                                             cccGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATg                                                                                  >  1:15729/1‑57 (MQ=255)                                                                                                                              ccGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGcccg                                                                          <  1:42690/64‑3 (MQ=255)                                                                                                                              ccGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGcccg                                                                          >  2:42690/1‑62 (MQ=255)                                                                                                                              ccGCCAATTTGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCCGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTTATAAAGCGCGGCGGCTTTCGCtt  <  5:284198/136‑1 (MQ=255)                                                                                                                                       |                                                                                                                               TGAGGTCATTTTTCTTTTTTTGAAAAGCGATTCCTGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTAGTACTTTATAGATTTTCAAGAGGCTATCTCTCCCGCCAATTAGCTTTTGACTGGGATTTTACCTCCTTTTGACCGCCATGTAAAGATGCGGGCCAGCTCTCTCCTGCTTTGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTTATAAAGCGCGGCGGCTTTCGCTT  >  CP006881/3724715‑3724975

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑