BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP009273	691,931	T→A	10.5%	noncoding (30/75 nt)	glnX ←	tRNA‑Gln

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP009273	691,931	0	T	A	10.5%	1173.2 / 54.8	398	noncoding (30/75 nt)	glnX	tRNA‑Gln
Reads supporting (aligned to +/- strand): ref base T (99/255); new base A (2/42); total (101/297)
Fisher's exact test for biased strand distribution p-value = 3.37e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 402 total aligned reads displayed.

GCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAA  >  CP009273/691864‑691996

     aGCGATCTTTTTTAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGt                                                              <  1:38540792/68‑1 (MQ=11)

     aGCGAGCTTTTTTAATTTGGCTGGGGTACGAGGATTCGAACCAGGGAATGCCGGTATCAAAAACCGGt                                                              <  1:342741/68‑1 (MQ=14)

     aGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGt                                                              <  1:24530484/68‑1 (MQ=255)

     aGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGt                                                              <  1:6124493/68‑1 (MQ=255)

     aGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGt                                                              <  1:28007359/68‑1 (MQ=255)

     aGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGt                                                              <  1:29416175/68‑1 (MQ=255)

     aGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGt                                                              <  1:35847405/68‑1 (MQ=255)

     aGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGt                                                              <  1:13750997/68‑1 (MQ=255)

     aGCGAGCTTTTTTAATGAGGCGGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGt                                                              <  1:14432824/68‑1 (MQ=255)

        gaggtttttTAATTTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGTATCAAAAACCGGTGcc                                                           <  1:15243391‑M2/59‑1 (MQ=255)

        gagctttttTAATGTGGCTGGGGTACGAGGATTCGAACCTGGGAATGCCGGTATCAAAAACCGGTGcc                                                           <  1:20456588‑M2/59‑1 (MQ=255)

        gagctttttTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGcc                                                           <  1:22638244‑M2/59‑1 (MQ=255)

        gagctttttTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGcc                                                           <  1:18224108‑M2/59‑1 (MQ=255)

        gagctttttTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGc                                                            <  1:32514380‑M2/58‑1 (MQ=255)

        gagctttttTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGc                                                            <  1:33768586‑M2/58‑1 (MQ=255)

        gagctttttTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGc                                                            <  1:16055496‑M2/58‑1 (MQ=255)

        gagctttttTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGc                                                            <  1:23318667‑M2/58‑1 (MQ=255)

        gagctttttTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGc                                                            <  1:868137‑M2/58‑1 (MQ=255)

        gagatttttTAATGTGGCTGGGGTACGAGGATTCGAACCTGGGAATGCCGGTATCAAAAACCGGTGcc                                                           <  1:18361364‑M2/59‑1 (MQ=255)

          gctttttTAATGTGGCTGGGGTACGATGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCt                                                          <  1:8922876‑M2/60‑1 (MQ=255)

          gctttttTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCtt                                                         >  1:19642057‑M2/8‑68 (MQ=255)

          gcttgttTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCt                                                          <  1:26977258‑M2/60‑1 (MQ=255)

             ttttttATTTGGCTGGTGTACGTGGATTCGAACCTGGGAATGCCGGAATCATAAACCGGTGCCTTAcc                                                      <  1:36752663/68‑1 (MQ=11)

             ttttTAATTTGTCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTAcc                                                      <  1:10973933‑M2/64‑1 (MQ=255)

             ttttTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTAcc                                                      <  1:12538442‑M2/64‑1 (MQ=255)

             ttttTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAAAAACCGGTGCCTTAcc                                                      <  1:26812701‑M2/64‑1 (MQ=255)

               ttTAATTTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGc                                                    <  1:31621032‑M2/66‑1 (MQ=255)

               ttTAATTTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGc                                                    <  1:27638223‑M2/66‑1 (MQ=255)

               ttTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGc                                                    <  1:18918623‑M2/66‑1 (MQ=255)

               ttTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGc                                                    <  1:30522690‑M2/66‑1 (MQ=255)

               tatAATGTGGCTGGGGTACGTGGATTCGAACCTCGGAATGCCGGAATCAAAAACCGGTGCCTTACCGc                                                    <  1:96053/66‑1 (MQ=14)

                tTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCt                                                   >  1:11611959‑M2/2‑68 (MQ=255)

                tTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCt                                                   >  1:28458248‑M2/2‑68 (MQ=255)

                tTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCt                                                   <  1:24869783‑M2/67‑1 (MQ=255)

                  aaTGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTg                                                 >  1:18570835/1‑68 (MQ=37)

                   aTGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTgg                                                <  1:17004305/68‑1 (MQ=35)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGTATCATAAACCGGTGCCTTACCGCTTGGc                                               <  1:27526612/68‑1 (MQ=11)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCGTTACCGCTTGGc                                               >  1:8492071/1‑68 (MQ=18)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                               <  1:3786704/68‑1 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                               >  1:33106721/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                               >  1:3869915/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                               >  1:11937616/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                               <  1:6356624/68‑1 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                               >  1:29251725/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                               >  1:13519726/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                               >  1:34038473/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                               >  1:28174775/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                               >  1:34650856/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                               >  1:10548129/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                               >  1:25192826/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                               <  1:20826948/68‑1 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                               >  1:22919802/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                               >  1:25772283/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                               >  1:17630484/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                               >  1:27150932/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAAAAACCGGTGCCTTACCGCTTGGc                                               <  1:37149552/68‑1 (MQ=255)

                                 cGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTCCCGCTTGGCGATACCCCAACTg                                  <  1:6811629/68‑1 (MQ=18)

                                 cGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTg                                  <  1:17234435/68‑1 (MQ=33)

                                 cGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTg                                  <  1:15038139/68‑1 (MQ=33)

                                  gAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTgg                                 <  1:7338925/68‑1 (MQ=35)

                                  gAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTgg                                 <  1:35738406/68‑1 (MQ=35)

                                  gAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTgg                                 <  1:35256060/68‑1 (MQ=35)

                                   aGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCaataa                                  >  1:30005832/1‑63 (MQ=1)

                                   aGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACtaat                                >  1:16314046/1‑65 (MQ=1)

                                    ggATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGt                               >  1:8083539/1‑68 (MQ=39)

                                      aTTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTg                              <  1:7202776/67‑1 (MQ=40)

                                      aTTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTg                              <  1:32781577/67‑1 (MQ=40)

                                      aTTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTg                              <  1:24130824/67‑1 (MQ=40)

                                       ttCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGc                             <  1:36039983/67‑1 (MQ=255)

                                       ttCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCa                            <  1:4142790/68‑1 (MQ=255)

                                         cGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACt                          <  1:7676683/68‑1 (MQ=255)

                                         cGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACt                          <  1:10008466/68‑1 (MQ=255)

                                         cGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACt                          <  1:13121665/68‑1 (MQ=255)

                                         cGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACt                          <  1:5309255/68‑1 (MQ=255)

                                         cGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACt                          <  1:6995929/68‑1 (MQ=255)

                                         cGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACt                          <  1:34865504/68‑1 (MQ=255)

                                         cGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACt                          <  1:21969701/68‑1 (MQ=255)

                                         cGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACt                          <  1:26100089/68‑1 (MQ=255)

                                         cGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACt                          <  1:26380596/68‑1 (MQ=255)

                                         cGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACt                          <  1:31211847/68‑1 (MQ=255)

                                         cGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACt                          <  1:31725277/68‑1 (MQ=255)

                                            aCCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTa                        <  1:31983764/67‑1 (MQ=255)

                                            aCCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTa                        <  1:30815073/67‑1 (MQ=255)

                                            aCCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTa                        <  1:12098169/67‑1 (MQ=255)

                                            aCCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACAGGGTGGACttta                       >  1:33446156/1‑66 (MQ=11)

                                             ccTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACa                      <  1:29629669/68‑1 (MQ=255)

                                             ccTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACa                      <  1:39040058/68‑1 (MQ=255)

                                             ccTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACa                      <  1:4250302/68‑1 (MQ=255)

                                               tCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAg                    <  1:5027492/68‑1 (MQ=255)

                                               tCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAg                    <  1:20020147/68‑1 (MQ=255)

                                               tCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAg                    <  1:13241116/68‑1 (MQ=255)

                                               tCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAg                    <  1:21337705/68‑1 (MQ=255)

                                                 ggAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGt                  <  1:13360893/68‑1 (MQ=255)

                                                        cGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGt            <  1:5775720/67‑1 (MQ=255)

                                                        cGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGt            <  1:15606726/67‑1 (MQ=255)

                                                        cGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGt            <  1:19226948/67‑1 (MQ=255)

                                                        cGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGt            <  1:9107327/67‑1 (MQ=255)

                                                            aTCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTg        <  1:14115819/67‑1 (MQ=255)

                                                            aTCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGa       <  1:23667058/68‑1 (MQ=255)

                                                            aTCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGa       <  1:22846002/68‑1 (MQ=255)

GCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAA  >  CP009273/691864‑691996

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`