Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	W3110S.gb	2,706,728	G→A	48.9%	P228L (CCA→CTA)	rseB ←	anti‑sigma factor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	2,706,728	0	G	A	48.9%	‑0.7 / 64.5	45	P228L (CCA→CTA)	rseB	anti‑sigma factor
Reads supporting (aligned to +/- strand):  ref base G (4/19);  new base A (13/9);  total (17/28)
Fisher's exact test for biased strand distribution p-value = 5.80e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.82e-01

CGATAGGCATGTTGTCCATCGTCGGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTGGCAACCAGGTTGGCGTCCAGCTGAATTTAGCTTTTTCACCTACAGGAACAGAAAGC  >  W3110S.gb/2706663‑2706784                                                                  |                                                         cGATAGGCATGTTGTCCATCGTCGGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTGGCa                                                       <  1:1202865/69‑1 (MQ=255)     aGGCATGTTGTCCATCGTCGGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTAGCAACCa                                                   >  1:70243/1‑69 (MQ=255)      ggCATTTTGTCCATCGTCGGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTAGCAACCAg                                                  <  1:3636747/69‑1 (MQ=255)      ggCATGTTGTCCATCGTCGGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTAGCAACCAg                                                  <  1:2620119/69‑1 (MQ=255)        cATGTTGTCCATCGTCGGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTGGCAACCAgg                                                 <  1:2255490/68‑1 (MQ=255)         aTGTTGTCCATCGTCGGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTAGCAACCAGGtt                                               <  1:2019673/69‑1 (MQ=255)            ttgtCCATCGTCGGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTGGCAACCAGGTTGGc                                            >  1:1204805/1‑69 (MQ=255)            ttgtCCATCGTCGGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTAGCAACCAGGTTGGc                                            <  1:165481/69‑1 (MQ=255)            ttgtCCATCGTCGGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTAGCAACCAGGTTGGc                                            <  1:1658133/69‑1 (MQ=255)                ccATCGTCGGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTGGCAACCAGGTTGGCGTc                                         <  1:965658/68‑1 (MQ=255)                ccATCGTCGGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTGGCAACCAGGTTGGCGTc                                         <  1:1897455/68‑1 (MQ=255)                ccATCGTCGGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTGGCAACCAGGTTGGCGTc                                         <  1:1718532/68‑1 (MQ=255)                ccATCGTCGGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTGGCAACCAGGTTGGCGTc                                         <  1:1488745/68‑1 (MQ=255)                 cATCGTCGGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTGGCAACCAGGTTGGCGTc                                         <  1:3005080/67‑1 (MQ=255)                  aTCGTCGGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTAGCAACCAg                                                  >  1:1792485/1‑57 (MQ=255)                  aTCGTCGGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTAGCAACCAg                                                  >  1:1225948/1‑57 (MQ=255)                   tcgtcgGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTAGCAACCAGGTTGGCGTCCAg                                      >  1:423040/1‑68 (MQ=255)                     gtcgGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTGGCAACCAg                                                  <  1:517310/54‑1 (MQ=255)                     gtcgGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTGGCAACCAg                                                  <  1:2222726/54‑1 (MQ=255)                     gtcgGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTAGc                                                        >  1:1069930/1‑48 (MQ=255)                     gtcgGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTAGc                                                        >  1:2778129/1‑48 (MQ=255)                     gtcgGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTAGc                                                        >  1:1340359/1‑48 (MQ=255)                     gtcgGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTAGCAACCAGGTTGGCGTCCAGCTg                                   >  1:3348126/1‑69 (MQ=255)                       cgGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTGGCAACCAGGTTGGCGTCCAGCTGaa                                 <  1:530927/69‑1 (MQ=255)                                 cGTCGACTACTGGAAACTTCGCTAAAACCCTGTAGCAAcc                                                    >  1:2671420/1‑40 (MQ=255)                                     gACTACTGGAAACTTCGCTAAAACCCTGTGGCAACCAGGTTGGCGTCCAGCTGAATTTAGCt                          <  1:2326454/62‑1 (MQ=255)                                      actactGGAAACTTCGCTAAAACCCTGTGGCAACCAGGTTGGCGTCCAGCTGAATTTAGCt                          <  1:2099933/61‑1 (MQ=255)                                         actGGAAACTTCGCTAAAACCCTGTAGCAACCAGGTTGGCGTCCAGCTGAATTTAGCTTTTTCACCTAc               <  1:2684945/69‑1 (MQ=255)                                         actGGAAACTTCGCTAAAACCCTGTAGCAACCAGGTTGGCGTCCAGCTGAATTTAGCTTTTTCACCTAc               <  1:416148/69‑1 (MQ=255)                                             gAAACTTCGCTAAAACCCTGTGGCAACCAGGTTGGCGTCCAGCTGAATTTAGCTTTTTCACCTACAgg            >  1:2978298/1‑68 (MQ=255)                                             gAAACTTCGCTAAAACCCTGTGGCAACCAGGTTGGCGTCCAGCTGAATTTAGCTTTTTCACCTACAgg            >  1:2141995/1‑68 (MQ=255)                                             gAAACTTCGCTAAAACCCTGTGGCAACCAGGTTGGCGTCCAGCTGAATTTAGCTTTTTCACCTACAgg            >  1:145793/1‑68 (MQ=255)                                               aaCTTCGCTAAAACCCTGTGGCAACCAGGTTGGCGTCCAGCTGAAtt                               <  1:3722766/47‑1 (MQ=255)                                                aCTTCGCTAAAACCCTGTGGCAACCAGGTTGGCGTCCAGCTGAATTTAGCTTTTTCACCTACAGGAACa        <  1:540544/69‑1 (MQ=255)                                                  ttCGCTAAAACCCTGTAGCAACCAGGTTGGCGTCCAGCTGAATTTAGCTTTTTCACCt                 >  1:1609064/1‑58 (MQ=255)                                                  ttCGCTAAAACCCTGTAGCAACCAGGTTGGCGTCCAGCTGAATTTAGCTTTTTCACCTACAGGAACa        >  1:1255799/1‑67 (MQ=255)                                                  ttCGCTAAAACCCTGTAGCAACCAGGTTGGCGTCCAGCTGAATTTAGCTTTTTCACCTACAGGAACAGa      <  1:1427705/69‑1 (MQ=255)                                                     gCTAAAACCCTGTAGCAACCAGGTTGGCGTCCAGCTGAATTTAGCTTTTTCACCTACAGGAACAGaaa    >  1:3612667/1‑68 (MQ=255)                                                     gCTAAAACCCTGTAGCAACCAGGTTGGCGTCCAGCTGAATTTAGCTTTTTCACCTACAGGAACAGaaa    >  1:3176357/1‑68 (MQ=255)                                                       tAAAACCCTGTGGCAACCAGGTTGGCGTCCAGCTGAATTTAGCTTTTTCACCTACAGGAACAGAAAGc  <  1:2202884/68‑1 (MQ=255)                                                       tAAAACCCTGTGGCAACCAGGTTGGCGTCCAGCTGAATTTAGCTTTTTCACCTACAGGAACAGAAAGc  <  1:227146/68‑1 (MQ=255)                                                       tAAAACCCTGTGGAAACCAGGTTGGCGTCCAGCTGAATTTAGCTTTTTCACCTACAGGAACAGAAAGc  <  1:1871351/68‑1 (MQ=255)                                                       tAAAACCCTGTAGCAACCAGGTTGGCGTCCAGCTGAATTTAGCTTTTTCACCTACAGGAACAGAAAGc  <  1:830924/68‑1 (MQ=255)                                                           aCCCTGTGGCAACCAGGTTGGCGTCCAGCTGAATTTAGCt                          <  1:699727/40‑1 (MQ=255)                                                           aCCCTGTGGCAACCAGGTTGGCGTCCAGCTGAATTTAGCt                          <  1:765569/40‑1 (MQ=255)                                                                  |                                                         CGATAGGCATGTTGTCCATCGTCGGTAGCGGACGTCGACTACTGGAAACTTCGCTAAAACCCTGTGGCAACCAGGTTGGCGTCCAGCTGAATTTAGCTTTTTCACCTACAGGAACAGAAAGC  >  W3110S.gb/2706663‑2706784

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