Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,212,012	T→C	intergenic (‑9/+691)	iraM ← / ← ycgX	RpoS stabilzer during Mg starvation, anti‑RssB factor/DUF1398 family protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,212,012	0	T	C	100.0%	258.6 / NA	68	intergenic (‑9/+691)	iraM/ycgX	RpoS stabilzer during Mg starvation, anti‑RssB factor/DUF1398 family protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (28/40);  total (28/40)

ACTGCCAGGAGGGAGAAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGTCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCATATGAGTATATTACCCCCCCCTCAAAAAAATAAATTAATTAAAATGATGGCTTATATAAAATAAAATTTA  >  NC_000913/1211881‑1212137                                                                                                                                    |                                                                                                                              aCTGCCAGGAGGGAGAAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATcc                                                                                                                        >  1:1160112/1‑139 (MQ=255)  cTGCCAGGAGGGAGAAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATccc                                                                                                                       >  1:1059457/1‑139 (MQ=255)  cTGCCAGGAGGGAGAAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATccc                                                                                                                       >  2:1218886/1‑139 (MQ=255)  cTGCCAGGAGGGAGAAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATccc                                                                                                                       >  1:160998/1‑139 (MQ=255)  cTGCCAGGAGGGAGAAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATc                                                                                                                         >  2:504163/1‑137 (MQ=255)  cTGCCAGGAGGGAGAAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATc                                                                                                                         <  1:504163/137‑1 (MQ=255)   tGCCAGGAGGGAGAAATATAGTAGATTGATACCAGCTGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCa                                                                                                                      <  1:748192/139‑1 (MQ=255)   tGCCAGGAGGGAGAAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCa                                                                                                                      <  2:39322/139‑1 (MQ=255)   tGCCAGGAGGGAGAAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCa                                                                                                                      <  2:160998/139‑1 (MQ=255)   tGCCAGGAGGGAGAAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCa                                                                                                                      <  2:645208/139‑1 (MQ=255)   tGCCAGGAGGGAGAAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCa                                                                                                                      <  1:278285/139‑1 (MQ=255)    gCCAGGAGGGAGAAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCAc                                                                                                                     >  2:681178/1‑139 (MQ=255)     ccAGGAGGGAGAAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACg                                                                                                                    <  1:681178/139‑1 (MQ=255)     ccAGGAGGGAGAAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACg                                                                                                                    <  2:154674/139‑1 (MQ=255)     ccAGGAGGGAGAAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACg                                                                                                                    <  1:1120938/139‑1 (MQ=255)     ccAGGAGGGAGAAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACg                                                                                                                    <  2:963098/139‑1 (MQ=255)          agggagAAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGt                                                                                                                  <  2:496676/136‑1 (MQ=255)          agggagAAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGt                                                                                                                  >  1:496676/1‑136 (MQ=255)               gaAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAata                                                                                                          <  1:933360/139‑1 (MQ=255)               gaAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAata                                                                                                          <  1:809599/139‑1 (MQ=255)               gaAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAata                                                                                                          <  2:940507/139‑1 (MQ=255)                aaaTATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAatat                                                                                                         <  1:1218886/139‑1 (MQ=255)                        tagATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCAtt                                                                                                 <  2:1160112/139‑1 (MQ=255)                          gATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAg                                                                                               >  2:196806/1‑139 (MQ=255)                           aTTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAgg                                                                                              <  1:1222188/139‑1 (MQ=255)                             tGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTAtt                                                                                                               >  1:507702/1‑120 (MQ=255)                             tGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTAtt                                                                                                               <  2:507702/120‑1 (MQ=255)                                tACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGtt                                                                                         <  2:1059457/139‑1 (MQ=255)                                     gatgatCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCa                                                                                                                      <  1:471300/105‑1 (MQ=255)                                     gatgatCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCa                                                                                                                      >  2:471300/1‑105 (MQ=255)                                     gatgatCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCAc                                                                                                                     >  2:265142/1‑106 (MQ=255)                                     gatgatCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCAc                                                                                                                     <  1:265142/106‑1 (MQ=255)                                     gatgatCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTAttt                                                                                    >  2:1034919/1‑139 (MQ=255)                                                 cATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCa                                                                        <  1:1034919/139‑1 (MQ=255)                                                 cATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCa                                                                        <  1:211944/139‑1 (MQ=255)                                                      tACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCATATGa                                                                   <  2:574227/139‑1 (MQ=255)                                                      tACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCATATGa                                                                   <  1:27294/139‑1 (MQ=255)                                                        ccccATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCATATGAGt                                                                 <  1:655709/139‑1 (MQ=255)                                                         cccATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCATATGAGta                                                                <  1:236661/139‑1 (MQ=255)                                                             tatGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCATATGAGTATAtt                                                            >  1:16299/1‑139 (MQ=255)                                                              atGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCa                                                                        <  1:211606/126‑1 (MQ=255)                                                              atGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCAACTTCATTTGTTATGCCTTATACCAAGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCa                                                                        >  2:211606/1‑126 (MQ=255)                                                                    gAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTAtt                                                                                                               <  2:569739/81‑1 (MQ=255)                                                                    gAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTAtt                                                                                                               >  1:569739/1‑81 (MQ=255)                                                                               aCCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCATATGAGTATATTACCCCCCCCTCaaaaaaa                                          >  1:1008384/1‑139 (MQ=255)                                                                                      gTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCatat                                                                     >  2:106469/1‑105 (MQ=255)                                                                                      gTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCatat                                                                     <  1:106469/105‑1 (MQ=255)                                                                                      gTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCATATGAGTATATTACCCCCCCCTCAAAAAAATAaatta                                   >  1:874159/1‑139 (MQ=255)                                                                                          gTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCat                                                                       >  2:1236843/1‑99 (MQ=255)                                                                                          gTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCat                                                                       <  1:1236843/99‑1 (MQ=255)                                                                                              aaTTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCATATGAGTATATTACCCCCCCCTCAAAAAAATAAattaatta                               >  1:269922/1‑135 (MQ=255)                                                                                              aaTTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCATATGAGTATATTACCCCCCCCTCAAAAAAATAAattaatta                               <  2:269922/135‑1 (MQ=255)                                                                                              aaTTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCATATGAGTATATTACCCCCCCCTCAAAAAAATAAATTAATTAAAat                           >  1:1185978/1‑139 (MQ=255)                                                                                               aTTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCATATGAGTATATTACCCCCCCCTCAAAAAAATAAATTAATTAAAatg                          <  2:874159/139‑1 (MQ=255)                                                                                               aTTACCGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCATATGAGTATATTACCCCCCCCTCAAAAAAATAAATTAATTAAAatg                          <  2:1185978/139‑1 (MQ=255)                                                                                                   ccGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGAtt                                                                             >  1:711351/1‑84 (MQ=255)                                                                                                   ccGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGAtt                                                                             <  2:711351/84‑1 (MQ=255)                                                                                                   ccGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCatat                                                                     <  1:1015801/92‑1 (MQ=255)                                                                                                   ccGTGTCAATTACTATCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCatat                                                                     >  2:1015801/1‑92 (MQ=255)                                                                                                           aTTACTATCCACTTCATTTGTTATGCCTTATCCCACg                                                                                                                    >  1:897578/1‑37 (MQ=255)                                                                                                           aTTACTATCCACTTCATTTGTTATGCCTTATCCCACg                                                                                                                    <  2:897578/37‑1 (MQ=38)                                                                                                                  tCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATg                                                                                                        >  2:1200429/1‑42 (MQ=255)                                                                                                                  tCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATg                                                                                                        <  1:1200429/42‑1 (MQ=255)                                                                                                                  tCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAgg                                                                                              <  2:412153/52‑1 (MQ=255)                                                                                                                  tCCACTTCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAgg                                                                                              >  1:412153/1‑52 (MQ=255)                                                                                                                       ttCATTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCATATGAGTATATTACCCCCCCCTCAAAAAAATAAATTAATTAAAATGATGGCTTATATAAAATAAAATTTa  >  2:1075990/1‑139 (MQ=255)                                                                                                                          aTTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCatat                                                                     <  2:1044453/69‑1 (MQ=255)                                                                                                                          aTTTGTTATGCCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCatat                                                                     >  1:1044453/1‑69 (MQ=255)                                                                                                                                    |                                                                                                                              ACTGCCAGGAGGGAGAAATATAGTAGATTGATACCAGATGATCATTTTCATATTACCCCATATGGCTGAAAAAGATATACCACATGTAGGTTGAATTACCGTGTCAATTACTATCCACTTCATTTGTTATGTCTTATCCCACGGTATTTAATATGGTTCATTAGGATGTTTATTTCTTGATTTTGCATATGAGTATATTACCCCCCCCTCAAAAAAATAAATTAATTAAAATGATGGCTTATATAAAATAAAATTTA  >  NC_000913/1211881‑1212137

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑