Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_002947	1,932,640	+C	intergenic (‑107/+43)	rluA ← / ← minE	bifunctional tRNA pseudouridine(32) synthase TrmQ/ribosomal large subunit pseudouridine synthase RluA/cell division topological specificity factor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	1,932,638	1	.	C	100.0%	160.2 / NA	47	intergenic (‑105/+45)	rluA/minE	bifunctional tRNA pseudouridine(32) synthase TrmQ/ribosomal large subunit pseudouridine synthase RluA/cell division topological specificity factor
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base C (23/24);  total (23/24)

AAGAGGATCTGGACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTG‑CCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACATATT  >  NC_002947/1932505‑1932780                                                                                                                                       |                                                                                                                                                aaGAGGATCTGGACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTG‑cc                                                                                                                                               <  7:139342/136‑1 (MQ=255)          tGGACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGcc                                                                                                                          >  2:276988/1‑149 (MQ=255)                                     ctcACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCg                                                                                               <  1:199827/149‑1 (MQ=255)                                        aCGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATc                                                                                            >  5:379421/1‑149 (MQ=255)                                        aCGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATc                                                                                            >  7:175806/1‑149 (MQ=255)                                           aaaaTAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCgg                                                                                         >  7:356634/1‑149 (MQ=255)                                                 gCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGCCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGt                                                                                   <  7:317935/149‑1 (MQ=255)                                                   aGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGa                                                                                 >  4:63465/1‑149 (MQ=255)                                                    gTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTGCCCGGTAGGCGCGGGCGTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGGGAt                                                                                >  1:153465/1‑149 (MQ=38)                                                       aacccgggggCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAACGCATATGCGCCCCCTGTCGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGtt                                                                             <  1:356379/143‑1 (MQ=37)                                                          gCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAg                                                                          >  1:25063/1‑149 (MQ=255)                                                             ggggCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTc                                                                       <  2:25063/149‑1 (MQ=255)                                                                    cTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTATGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATc                                                                <  1:276988/149‑1 (MQ=255)                                                                    cTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATc                                                                <  7:17875/149‑1 (MQ=255)                                                                      tctcGGCCCTGCGCGGGAAAGCCCGCTCCTACAAAGGATATGCGGCCCCTGTAGGAGGGGGCTGGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATc                                                                <  3:139711/144‑1 (MQ=255)                                                                       tggggCCCTTCGCGGGCAAGCCCGCTCAAACAAAGTAAATGCGCCCCCTGTAGGTGGGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGa                                                              <  2:297754/145‑1 (MQ=38)                                                                        gCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTACAGAATCGag                                                             <  6:360083/148‑1 (MQ=255)                                                                             ccTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATc                                                                                            <  7:299729/112‑1 (MQ=255)                                                                                tCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTc                                                                       <  7:19205/130‑1 (MQ=255)                                                                                   cgGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTc                                                                       >  4:344985/1‑127 (MQ=255)                                                                                   cgGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTc                                                                       <  3:344985/127‑1 (MQ=255)                                                                                   cgGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTgg                                                <  6:379421/149‑1 (MQ=255)                                                                                    gggCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGt                                               >  1:262876/1‑149 (MQ=255)                                                                                        aaGCCCGCTCCTACAGGGGACGCATATCCTTTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTc                                           >  4:1127/1‑149 (MQ=21)                                                                                           cccGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTCCAg                                        >  4:54979/1‑149 (MQ=255)                                                                                           cccGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTCCAg                                        >  7:154588/1‑149 (MQ=255)                                                                                               cTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTCCAGCTc                                     >  5:43354/1‑148 (MQ=255)                                                                                                  cTACAAAGTATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGTCAGCTGCCCTGGTTTTCCAGCTCGat                                  <  1:3165/149‑1 (MQ=39)                                                                                                   tACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTCCAGCTCGatat                                >  4:164772/1‑149 (MQ=255)                                                                                                     cAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTCCAGCTCGatat                                <  6:43354/147‑1 (MQ=255)                                                                                                      aaaGGATATGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTCCAGCTCGATATGca                             >  6:335379/1‑149 (MQ=255)                                                                                                             atGCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTCCAGCTCGATATGCACatcatc                      >  1:155285/1‑149 (MQ=255)                                                                                                               gCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGtt                                                                             <  6:264115/93‑1 (MQ=255)                                                                                                               gCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGtt                                                                             >  5:264115/1‑93 (MQ=255)                                                                                                               gCGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCACTGGTTTTCCAGCTCGATATGCACATCATCGt                    >  2:355889/1‑149 (MQ=255)                                                                                                                cGTCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGtt                   >  4:342485/1‑149 (MQ=255)                                                                                                                  tCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGc                 >  5:171117/1‑149 (MQ=255)                                                                                                                  tCCCCTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGc                 <  2:262876/149‑1 (MQ=255)                                                                                                                  cccccTGACGGCGGGGGTTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGc                 <  3:168150/148‑1 (MQ=255)                                                                                                                     ccTGTAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGa              <  3:54979/149‑1 (MQ=255)                                                                                                                         tAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATg            <  3:164772/147‑1 (MQ=255)                                                                                                                         tAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGt           <  6:171117/148‑1 (MQ=255)                                                                                                                         tAGGAGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGt           <  3:63465/148‑1 (MQ=255)                                                                                                                             aGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTcaca      >  2:179513/1‑149 (MQ=255)                                                                                                                             aGCGGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTcaca      <  1:179513/149‑1 (MQ=255)                                                                                                                                gggCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CGGCTGCCCTGGTTTTCCAGCTCGATATGcac                            <  6:233275/124‑1 (MQ=255)                                                                                                                                gggCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CGGCTGCCCTGGTTTTCCAGCTCGATATGcac                            >  5:233275/1‑124 (MQ=255)                                                                                                                                 ggCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑AAGCTGCCCTGTTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACATAtt  >  4:92855/1‑149 (MQ=255)                                                                                                                                       |                                                                                                                                                AAGAGGATCTGGACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTTG‑CCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAG‑CAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACATATT  >  NC_002947/1932505‑1932780

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: ‑