BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP009273	2,514,509	G→T	5.1%	intergenic (+24/‑23)	valU → / → valY	tRNA‑Val/tRNA‑Val

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP009273	2,514,509	0	G	T	5.1%	1118.7 / 5.5	359	intergenic (+24/‑23)	valU/valY	tRNA‑Val/tRNA‑Val
Reads supporting (aligned to +/- strand): ref base G (123/209); new base T (5/22); total (128/231)
Fisher's exact test for biased strand distribution p-value = 6.08e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 364 total aligned reads displayed.

TTACAAGGAGGGGGTCGGCGGTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGGAGAGCACCTCCCTTACAAGGAGGG  >  CP009273/2514442‑2514575

ttACAAGGAGGGGGTCGGCGGTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTg                                                                    <  1:16768058/68‑1 (MQ=255)

 tACAAGGAGGGGGTCGGCGGTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTga                                                                   >  1:32690557/1‑67 (MQ=255)

 tACAAGGAGGGGGTCGGCGGTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGt                                                                   <  1:21370624/68‑1 (MQ=255)

 tACAAGGAGGGGGTCGGCGGTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGt                                                                   <  1:32472629/68‑1 (MQ=255)

 tACAAGGAGGGGGTCGGCGGTTCGATCCCGTCATCACCCACCACTTACTCGCCAGCTAAATTtgttgt                                                                   >  1:6931308/1‑68 (MQ=255)

   cAAGGAGGGGGTCGGCGGTTCGATCCCGTCATCACCCACCACTTTGTCGCGAGATAAATTtgttgtta                                                                 >  1:23887689/1‑66 (MQ=17)

    aaGGAGGGGGTCGGCGGTTCGATCCCGTCATCACCCACCACTTTGTCGCGAGATAAATTTGTTGTaaa                                                                >  1:19991025/1‑68 (MQ=17)

    aaGGAGGGGGTCGGCGGTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTaaa                                                                >  1:33182098/1‑68 (MQ=255)

    aaGGAGGGGGTCGGCGGTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTaaa                                                                >  1:26414554/1‑68 (MQ=255)

    aaGGAGGGGGTCGGCGGTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTaaa                                                                >  1:27834848/1‑68 (MQ=255)

    aaGGAGGGGGTCGGCGGTTCGATCCCGTCATCACCCACCACTTAGTCTCGAGCGAAATTTTTTGTaaa                                                                >  1:11415632/1‑68 (MQ=14)

    aaGGAGGGGGTCGGCGGTTCGATCCCGTCATCACCCACCACTTACGCGCGAGCTAAAATTGTTGTaag                                                                >  1:16954619/1‑67 (MQ=14)

        aggGGGTCGGCGGTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTaaaaa                                                              <  1:29468197/66‑1 (MQ=255)

        aggGGGTCGGCGGTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAAtg                                                            >  1:8686309/1‑68 (MQ=255)

        aggGGGTCGGCGGTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAAtg                                                            >  1:30601095/1‑68 (MQ=255)

        aggGGGTCGGCGGTTCGATCCCGTCATCACCCACCACTTACTCGCCATAGAAATTTCTGGTaataatt                                                            >  1:21805373/1‑67 (MQ=17)

          ggggTCGGCGGTTCGATCCCGTCATCACCCACCACTTTCTCGCGTGCTAAAATTGTTGTTAAAAtgtg                                                          >  1:1902144/1‑68 (MQ=18)

            ggTCGGCGGTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGa                                                         <  1:17143342/67‑1 (MQ=255)

            ggTCGGCGGTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGa                                                         <  1:17811333/67‑1 (MQ=255)

            ggTCGGCGGTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGa                                                         <  1:1346458/67‑1 (MQ=255)

              tCGGCGGTTCGATCCCGTCATCACCCACCACTTACTCGCCATCTAAAATTCTTGAAAAAATGTGAAGt                                                      >  1:29994021/1‑68 (MQ=21)

               cggcggTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGt                                                      <  1:25821360/67‑1 (MQ=255)

               cggcggTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGt                                                      <  1:22901816/67‑1 (MQ=255)

               cggcggTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGt                                                      <  1:3575787/67‑1 (MQ=255)

               cggcggTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGt                                                      <  1:33410659/67‑1 (MQ=255)

               cggcggTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGt                                                      <  1:24117696/67‑1 (MQ=255)

               cggcggTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGt                                                      <  1:10550899/67‑1 (MQ=255)

               cggcggTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGt                                                      <  1:18195096/67‑1 (MQ=255)

               cggcggTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGt                                                      <  1:6431191/67‑1 (MQ=255)

               cggcggTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGt                                                      <  1:5866062/67‑1 (MQ=255)

               cggcggTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGt                                                      <  1:16017099/67‑1 (MQ=255)

                ggcggTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTAc                                                    <  1:20406210/68‑1 (MQ=255)

                       cGATCCCGTCATCACCCACCACTTTCTCGCCAGCTATATTTCTTGTAAAAATGTGAAGTACCGAAGTg                                             <  1:15360181/68‑1 (MQ=255)

                       cGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTg                                             <  1:13019007/68‑1 (MQ=255)

                          tCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTTTAAAAATGTGAAGTACCGAAGTGGGt                                          <  1:23544454/68‑1 (MQ=255)

                          tCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTggt                                           <  1:244041/67‑2 (MQ=255)

                          tCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTggg                                           <  1:31129655/67‑1 (MQ=255)

                          tCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTggg                                           <  1:19513786/67‑1 (MQ=255)

                          tCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGt                                          <  1:22379232/68‑1 (MQ=255)

                            ccGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGa                                        <  1:34363387/68‑1 (MQ=255)

                            ccGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGa                                        <  1:4587532/68‑1 (MQ=255)

                            ccGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGa                                        <  1:18063372/68‑1 (MQ=255)

                            ccGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGa                                        <  1:2979767/68‑1 (MQ=255)

                               tcatcaCCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTa                                     >  1:8930401/1‑68 (MQ=255)

                                catcaCCCACCACTTTCTCGCCATCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTa                                     <  1:28922290/67‑1 (MQ=255)

                                catcaCCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAATTGTGTGATTa                                     >  1:19606056/1‑67 (MQ=255)

                                catcaCCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTa                                     >  1:31585141/1‑67 (MQ=255)

                                catcaCCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTa                                     >  1:30933300/1‑67 (MQ=255)

                                 atcaCCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGc                                   <  1:25265642/68‑1 (MQ=255)

                                 atcaCCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGc                                   <  1:13683366/68‑1 (MQ=255)

                                  tcaCCCACCACTTTCTCGCCAGCTAAATTTCTTGTACAAATGTGAAGTACCGAAGTGGGTGATTAGc                                   >  1:15014253/1‑67 (MQ=255)

                                  tcaCCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTAACGAAGTTGGTGATTa                                     >  1:3831194/1‑65 (MQ=255)

                                   cacccaccACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTc                                 <  1:22064163/68‑1 (MQ=255)

                                    acccaccACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCa                                >  1:33607093/1‑68 (MQ=255)

                                     cccaccACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCa                                >  1:11252294/1‑67 (MQ=255)

                                     cccaccACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCa                                >  1:17422278/1‑67 (MQ=255)

                                     cccaccACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCa                                >  1:18258121/1‑67 (MQ=255)

                                     cccaccACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAg                               <  1:3283263/68‑1 (MQ=255)

                                     cccaccACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAg                               <  1:9431393/68‑1 (MQ=255)

                                     cccaccACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAg                               <  1:4136429/68‑1 (MQ=255)

                                     cccaccACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGGGGGTGATTAGCTCAg                               <  1:5687516/68‑1 (MQ=255)

                                     ccaaccacTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAg                               <  1:4709705/65‑1 (MQ=255)

                                      ccaccaCTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGc                              <  1:10057832/68‑1 (MQ=255)

                                      ccaccaCTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGc                              <  1:11816684/68‑1 (MQ=255)

                                      ccaccaCTATCTCGCCAGCTTAAATTCTTGTAAAACTGTGAAGTACCCAAGTGGGTGATTAGCTCAGc                              <  1:10727976/68‑1 (MQ=255)

                                        accacTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTg                            <  1:6082786/68‑1 (MQ=255)

                                          cacTTTCTCGCCATCTAAATTTCTTGTAAAAATGTGAAGTACCGCAGTGGGTGATTAGCTCAGCTggg                          <  1:30817048/68‑1 (MQ=39)

                                          cacTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTggg                          <  1:18784062/68‑1 (MQ=255)

                                          cacTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGGGGGTGATTAGCTCAGCTggg                          <  1:15791128/68‑1 (MQ=255)

                                           acTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGga                         >  1:5129256/1‑68 (MQ=255)

                                           acTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGga                         >  1:29052175/1‑68 (MQ=255)

                                            cTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGgag                        >  1:1431332/1‑68 (MQ=255)

                                               tctcGCCAGCTAAATTTCTTGTAAAACGGTGAACTACCGAAGGGGGTGATTAGCTCAGCTGGGAGAGc                     <  1:4249727/68‑1 (MQ=25)

                                                ctcGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGGAGAGc                     >  1:10679388/1‑67 (MQ=255)

                                                ctcGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGGAGAGc                     >  1:27682123/1‑67 (MQ=255)

                                                   gCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCt                                  >  1:33840498/1‑51 (MQ=255)

                                                   gCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGGAGAGCACCt                 <  1:9537425/68‑1 (MQ=255)

                                                     cttcTAAATATCTTTAAAAAACGTGTAGTACCCTAGGGGGTGATTAGCTCAGCTGGGAGAGCACCTcc               <  1:22462556/65‑1 (MQ=9)

                                                     cAGCTATATTTCTGTTAAAAATGTGAAGTACCTCAGGGGGTGATTAGCTCAGCTGGGATAGCACCTcc               <  1:12325177/68‑1 (MQ=18)

                                                     cAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGGAGAGCACCTcc               <  1:30229869/68‑1 (MQ=255)

                                                     cAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGGAGAGCACCTc                <  1:9871882/67‑1 (MQ=255)

                                                     cAGCTAAATATCTTGTAAAAATGTGAAGAACCGCAGTGGGTGATTAGCTCAGCTGGGAGAGCACCTcc               <  1:32007227/68‑1 (MQ=25)

                                                      aGCTAAATTTCTTTTAAAACTGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGGAGAGCACCTccc              <  1:1982135/68‑1 (MQ=255)

                                                      aGCTAAATATCTTGTAAAAAAGAGAAGTCCCCGCGTGGGTGATTAGCTCAGCTGGGAGAGCACCTccc              <  1:23300384/68‑1 (MQ=17)

                                                       tcTAAATTTCTTTTAAAAAAGTGAACTAACTAAGTGGGTGATTAGCTCAGCTGGGAGAGCACCTCCCt             <  1:5629872/67‑1 (MQ=18)

                                                       tcTAAATTTCTTGTAAAAATGTGACGTCCCGAAGTGGGTGATTAGCTCAGCTGGGAGAGCACCTCCCt             <  1:26076956/67‑1 (MQ=25)

                                                       gCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGGAGAGCACCTCCCt             >  1:24730507/1‑68 (MQ=255)

                                                         tAAATTTCTTGTAAAACTGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGGAGAGCACCTCCCt             <  1:29187293/66‑1 (MQ=255)

                                                         tAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGGAGAGCACCTccc              <  1:33769200/65‑1 (MQ=255)

                                                         tAAATTTCTTGTAAAAATGTGAAGTACCGAAGGGGGTGATTAGCTCAGCTGGGAGAGCACCTccc              <  1:8709646/65‑1 (MQ=255)

                                                         tAAATTTCTTGTAAAAAAGTGAAGTACCGCCGTGGGTGATTAGCGCAGCTGGGAGAGCACCTCCCt             <  1:7276810/66‑1 (MQ=25)

                                                         tAAATATCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGGAGAGCACCTCCCt             <  1:2837243/66‑1 (MQ=255)

                                                         tAAATATCTAGTAAAAATGTGAAGTACCGAAGGGGGTGATTAGCTCAGCTGGGAGAGCACCTccc              <  1:4802924/65‑1 (MQ=21)

                                                             tttCTTGTAAAAATGTGAAGTACCTAAGTGGGTGATTAGCTCAGCTGGGAGAGCACCTCCCTTACAag       <  1:25606007/68‑1 (MQ=255)

                                                              ttCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGGAGAGCACCTCCCTTACAagg      >  1:27460860/1‑68 (MQ=255)

                                                              ttCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGGAGAGCACCTCCCTTACAagg      >  1:6727850/1‑68 (MQ=255)

                                                              ttCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGGAGAGCACCTCCCTTACAagg      >  1:21027717/1‑68 (MQ=255)

                                                              ttCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGGAGAGCACCTCCCTTACAagg      >  1:17321352/1‑68 (MQ=255)

                                                               tCTTTTAAATATGTGTCGTACCGGAGTGTGTGATTAGCTCAGCTGGGAGAGCACCTCCCTTACAagga     <  1:31878094/68‑1 (MQ=17)

                                                               tCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGGAGAGCACCTCCCTTACAagga     >  1:26566377/1‑68 (MQ=255)

TTACAAGGAGGGGGTCGGCGGTTCGATCCCGTCATCACCCACCACTTTCTCGCCAGCTAAATTTCTTGTAAAAATGTGAAGTACCGAAGTGGGTGATTAGCTCAGCTGGGAGAGCACCTCCCTTACAAGGAGGG  >  CP009273/2514442‑2514575

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`