Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,383,475	T→C	F255L (TTC→CTC)	elaD →	protease ElaD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,383,475	0	T	C	98.2%	191.7 / ‑6.0	55	F255L (TTC→CTC)	elaD	protease ElaD
Reads supporting (aligned to +/- strand):  ref base T (0/1);  new base C (26/28);  total (26/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AAATATTAAGAGCGATCCATCATGGCCGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATATTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGAAATGTCGAATAATAATATAAAAGTTCATTTAAATGAACCAGAGATA  >  NC_000913/2383339‑2383606                                                                                                                                         |                                                                                                                                    aaaTATTAAGAGCGATCCATCATGGCCGAATGAAGTCCAGTTATTACCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCa                                                                                                                                  >  2:557648/1‑140 (MQ=255)  aaTATTAAGAGCGATCCATCATGGCCGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCaa                                                                                                                                 >  1:663950/1‑140 (MQ=255)          gagCGATCCATCATGGCCGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGc                                                                                                                         <  1:1185/140‑1 (MQ=255)          gagCGATCCATCATGGCCGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGc                                                                                                                         <  1:789842/140‑1 (MQ=255)           agCGTTCCATCATGGCCGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCg                                                                                                                        <  2:73598/140‑1 (MQ=255)           agCGATCCATCATGGCCGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCg                                                                                                                        <  1:297672/140‑1 (MQ=255)            gCGATCCATCATGGCCGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGGTATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATATTCAACTCATTGCGt                                                                                                                       <  2:497254/140‑1 (MQ=255)               aTCCATCATGGCCGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCa                                                                                                                    <  1:782309/140‑1 (MQ=255)               aTCCATCATGGCCGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCa                                                                                                                    >  1:225797/1‑140 (MQ=255)                tCCATCATGGCCGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCAc                                                                                                                   >  1:310496/1‑140 (MQ=255)                tCCATCATGGCCGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCAc                                                                                                                   <  1:557648/140‑1 (MQ=255)                    tcatGGCCGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAgg                                                                                                               <  1:200101/140‑1 (MQ=255)                          ccGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCa                                                                                                                    >  1:404180/1‑129 (MQ=255)                          ccGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCa                                                                                                                    <  2:534454/129‑1 (MQ=255)                          ccGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCa                                                                                                                    >  1:534454/1‑129 (MQ=255)                          ccGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCa                                                                                                                    <  2:404180/129‑1 (MQ=255)                          ccGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGc                                                                                                              >  2:570008/1‑135 (MQ=255)                          ccGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGc                                                                                                              <  1:570008/135‑1 (MQ=255)                          ccGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGa                                                                                                         >  2:571861/1‑140 (MQ=255)                          ccGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGa                                                                                                         >  2:340375/1‑140 (MQ=255)                                           aTTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTa                                                                                        >  2:667826/1‑140 (MQ=255)                                              ccccATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGc                                                                                     >  2:329287/1‑140 (MQ=255)                                                         cTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAAt                                                                          <  1:732574/140‑1 (MQ=255)                                                         cTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAAt                                                                          >  2:800344/1‑140 (MQ=255)                                                           ggCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAg                                                                        >  1:131817/1‑140 (MQ=255)                                                               gACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGtttt                                                                    >  2:154909/1‑140 (MQ=255)                                                                    tGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTc                                                               >  2:5422/1‑140 (MQ=255)                                                                      gATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTg                                                             >  2:65782/1‑140 (MQ=255)                                                                      gATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTg                                                             >  1:132661/1‑140 (MQ=255)                                                                      gATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTg                                                             >  2:614027/1‑140 (MQ=255)                                                                          ttAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACt                                                         >  1:79201/1‑140 (MQ=255)                                                                           tAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTc                                                        >  2:727034/1‑140 (MQ=255)                                                                            aGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCa                                                       <  2:132661/140‑1 (MQ=255)                                                                             gTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCAt                                                      <  2:309844/140‑1 (MQ=255)                                                                              tttCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATg                                                     >  2:426170/1‑140 (MQ=255)                                                                                tCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATggg                                                   >  2:639250/1‑140 (MQ=255)                                                                                     aCAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGaaa                                              <  2:684598/140‑1 (MQ=255)                                                                                     aCAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGaaa                                              <  2:310496/140‑1 (MQ=255)                                                                                       aGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGAAATg                                            <  1:340375/140‑1 (MQ=255)                                                                                             tAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGAAATGTCGaat                                      <  1:614027/140‑1 (MQ=255)                                                                                               gTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGAAATGTCGaataa                                    <  2:131817/140‑1 (MQ=255)                                                                                                taaataaaAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGAAATGTCGaataat                                   >  2:430222/1‑140 (MQ=255)                                                                                                 aaataaaAAAAATAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGAAATGTCGaataata                                  <  1:221455/140‑1 (MQ=255)                                                                                                       aaaaaaTAATAAACTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGAAATGTCGAATAATAATATaa                            >  1:593811/1‑140 (MQ=255)                                                                                                                   aCTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGAAATGTCGAATAATAATATAAAAGTTCATTTaa                <  2:430421/140‑1 (MQ=255)                                                                                                                    cTACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGAAATGTCGAATAATAATATAAAAGTTCATTTaaa               <  1:329287/140‑1 (MQ=255)                                                                                                                     tACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGAAATGTCGAATAATAATATAAAAGTTCATTTAAAt              >  1:614284/1‑140 (MQ=255)                                                                                                                     tACAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGAAATGTCGAATAATAATATAAAAGTTCATTTAAAt              <  2:663950/140‑1 (MQ=255)                                                                                                                       cAAATAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGAAATGTCGAATAATAATATAAAAGTTCATTTAAATGa            >  1:383495/1‑140 (MQ=255)                                                                                                                         aaTAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGAAATGTCGAATAATAATATAAAAGTTCATTTAAATGAAc          <  1:154909/140‑1 (MQ=255)                                                                                                                         aaTAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGAAATGTCGAATAATAATATAAAAGTTCATTTAAATGAAc          <  2:593811/140‑1 (MQ=255)                                                                                                                          aTAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGAAATGTCGAATAATAATATAAAAGTTCATTTAAATGAAcc         <  1:800344/140‑1 (MQ=255)                                                                                                                          aTAAAATGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGAAATGTCGAATAATAATATAAAAGTTCATTTAAATGAAcc         <  2:362502/140‑1 (MQ=255)                                                                                                                              aaTGCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGAAATGTCGAATAATAATATAAAAGTTCATTTAAATGAACCagag     <  1:727034/140‑1 (MQ=255)                                                                                                                                 gCGTCATACTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGAAATGTCGAATAATAATATAAAAGTTCATTTAAATGAACCAGAGata  <  1:426170/140‑1 (MQ=255)                                                                                                                                         |                                                                                                                                    AAATATTAAGAGCGATCCATCATGGCCGAATGAAGTCCAGTTATTCCCCATAAATACTGGCGGACACTGGATATTAGTTTCGCTACAGAAAATAGTAAATAAAAAAAATAATAAACTACAAATAAAATGCGTCATATTCAACTCATTGCGTGCACTAGGCTATGATAAAGAAAATTCACTTAAGCGTGTCATTAATAGTTTTAATTCTGAACTCATGGGAGAAATGTCGAATAATAATATAAAAGTTCATTTAAATGAACCAGAGATA  >  NC_000913/2383339‑2383606

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑