Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,056,064	G→A	noncoding (82/183 nt)	ssrS →	6S RNA inhibits RNA polymerase promoter binding

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,056,064	0	G	A	100.0%	115.8 / NA	37	noncoding (82/183 nt)	ssrS	6S RNA inhibits RNA polymerase promoter binding
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (16/21);  total (16/21)

TCGGTTTACTGTGGTAGAGTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTGAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTATCTGGCACCAGCCATGACGCA  >  NC_000913/3055948‑3056194                                                                                                                     |                                                                                                                                   tCGGTTTACTGTGGTAGAGTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCgaga                                                                                                              <  2:743076/139‑1 (MQ=255) tCGGTTTACTGTGGTAGAGTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCgaga                                                                                                              <  2:127161/139‑1 (MQ=255)        aCTGTGGTAGAGTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTa                                                                                                       >  1:724166/1‑139 (MQ=255)              gTAGAGTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTg                                                                                                 >  1:485354/1‑139 (MQ=255)               tAGAGTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAg                                                                                                                                  >  2:718878/1‑105 (MQ=255)               tAGAGTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAg                                                                                                                                  <  1:718878/105‑1 (MQ=255)                  agTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGcgac                                                                                             <  2:485354/139‑1 (MQ=255)                   gTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGcgacg                                                                                            <  1:167930/139‑1 (MQ=255)                     aaCCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCgacgac                                                                                          <  2:589313/139‑1 (MQ=255)                      aCCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCgg                                                                                                                         <  1:152317/107‑1 (MQ=255)                      aCCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCgg                                                                                                                         >  2:152317/1‑107 (MQ=255)                      aCCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCATTAAAACTGCGACGaca                                                                                         >  1:763974/1‑139 (MQ=255)                        cGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGAcaca                                                                                       >  2:529724/1‑139 (MQ=255)                          tGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACAtt                                                                                     <  1:289473/139‑1 (MQ=255)                          tGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACAtt                                                                                     <  2:258959/139‑1 (MQ=255)                          tGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACAtt                                                                                     >  1:317853/1‑139 (MQ=255)                                  aaaTTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGa                                                                             <  2:186854/139‑1 (MQ=255)                                               aTGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACcaagggttcaa                                                                <  2:650536/139‑1 (MQ=255)                                                  ttCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACcaagggttcaaggg                                                             >  1:253733/1‑139 (MQ=255)                                                  ttCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACcaagggttcaaggg                                                             >  2:312905/1‑139 (MQ=255)                                                     gCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTa                                                          <  2:724166/139‑1 (MQ=255)                                                                   ccccTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCggcggc                                            <  2:319412/139‑1 (MQ=255)                                                                       tGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCAtct                                        >  2:65709/1‑139 (MQ=255)                                                                              atatTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGAt                                 <  1:65709/139‑1 (MQ=255)                                                                               tatTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGAtt                                <  2:399494/139‑1 (MQ=255)                                                                                         cacaAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTAt                      >  2:89259/1‑139 (MQ=255)                                                                                         cacaAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTAt                      >  1:712851/1‑139 (MQ=255)                                                                                           caAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACcaagggttc                                                                  >  2:537988/1‑93 (MQ=255)                                                                                           caAGAATGTGGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACcaagggttc                                                                  <  1:537988/93‑1 (MQ=255)                                                                                                 tgtgGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACca                                                                         <  2:106236/80‑1 (MQ=255)                                                                                                 tgtgGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACca                                                                         >  1:106236/1‑80 (MQ=255)                                                                                                 tgtgGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTAAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTATCTGGCAcc              >  1:669309/1‑139 (MQ=255)                                                                                                   tgGCGCTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTATCTGGCACCAg            >  1:705333/1‑139 (MQ=255)                                                                                                        cTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTATCTGGCACCAGCCATg       <  2:216229/139‑1 (MQ=255)                                                                                                        cTCCGCGGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTAAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTATCTGGCACCAGCCATg       <  2:669309/139‑1 (MQ=255)                                                                                                           cgcgGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTATCTGGCACCAGCCATGACg    <  2:705333/139‑1 (MQ=255)                                                                                                             cgGTTGGTAAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTATCTGGCACCAGCCATGACGCa  <  1:89259/139‑1 (MQ=255)                                                                                                                     |                                                                                                                                   TCGGTTTACTGTGGTAGAGTAACCGTGAAGACAAAATTTCTCTGAGATGTTCGCAAGCGGGCCAGTCCCCTGAGCCGATATTTCATACCACAAGAATGTGGCGCTCCGCGGTTGGTGAGCATGCTCGGTCCGTCCGAGAAGCCTTAAAACTGCGACGACACATTCACCTTGAACCAAGGGTTCAAGGGTTACAGCCTGCGGCGGCATCTCGGAGATTCCCTTCTTATCTGGCACCAGCCATGACGCA  >  NC_000913/3055948‑3056194

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑