BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP009273	691,931	T→A	7.1%	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	7.1%	1451.0 / 37.2	458	noncoding (30/75 nt)	glnX	tRNA‑Gln
Reads supporting (aligned to +/- strand): ref base T (116/306); new base A (6/30); total (122/336)
Fisher's exact test for biased strand distribution p-value = 1.75e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 470 total aligned reads displayed.

GCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAAT  >  CP009273/691864‑691997

gCCGAAGCGAGCTTTTTTAATGTGGCTGGGTTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAAt                                                                    <  1:38663394/68‑1 (MQ=255)

 ccGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAAt                                                                    >  1:4547765/1‑67 (MQ=255)

  cGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATc                                                                   <  1:30767094/67‑1 (MQ=255)

  cGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATc                                                                   <  1:7388285/67‑1 (MQ=255)

     aGCGATCTTTTTTAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGt                                                               <  1:24427330/68‑1 (MQ=11)

     aGCGAGCTTTTTTAATGTGGCTGGGGTACGTGGATTCGAACCTGGGAATGCCGGTATCAAAAACCGGt                                                               <  1:27703436/68‑1 (MQ=14)

     aGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGt                                                               <  1:33406383/68‑1 (MQ=255)

     aGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGt                                                               <  1:41470288/68‑1 (MQ=255)

     aGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGt                                                               <  1:27313679/68‑1 (MQ=255)

     aGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGt                                                               <  1:7990701/68‑1 (MQ=255)

     aGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGt                                                               <  1:42888427/68‑1 (MQ=255)

     aGCGAGCTTTTTTAATGTGGCGGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGt                                                               <  1:38373136/68‑1 (MQ=255)

      gCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGt                                                               >  1:11388855/1‑67 (MQ=255)

       cgtgCTTTATTAATTTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGc                                                             <  1:37992925/65‑1 (MQ=11)

       cGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCAGGGAATGCCGGTATCAAAAACCGGTGc                                                             <  1:40383509/68‑1 (MQ=14)

        tatcTTTTTTAATTTGGCTGGGGTACGAGGATTCGAACCTGGGAATGCCGGTATCAAAAACCGGTGc                                                             <  1:6829922/64‑1 (MQ=14)

        gttcTTTTTTAATTTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGcc                                                            <  1:30229321/65‑1 (MQ=255)

        gtgCTTTTTTAATTTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGc                                                             <  1:29719757/65‑1 (MQ=255)

        gatcTTTTATAAAGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGcc                                                            <  1:17287444/65‑1 (MQ=11)

        gAGCTTTTTTATTGTGGCTGGGGTACGAGGATTCTAACCTCGGATTGCGGGAATCAGAATCCGGTGc                                                             <  1:29569814/67‑1 (MQ=17)

        gAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTg                                                              <  1:40813595/66‑1 (MQ=255)

        gAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGcc                                                            <  1:23786675/68‑1 (MQ=255)

        gAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGc                                                             <  1:41102823/67‑1 (MQ=255)

        gAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGc                                                             <  1:34024729/67‑1 (MQ=255)

        gAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGc                                                             <  1:11771174/67‑1 (MQ=255)

        gAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGc                                                             <  1:2100048/67‑1 (MQ=255)

        gAGCTTTATTAAAGTGGCTGGGCTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGcc                                                            <  1:14288550/68‑1 (MQ=14)

        ctgCTTTTTTAAAGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGc                                                             <  1:5700186/65‑1 (MQ=255)

            ttttttAATGTGGCGGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTAc                                                        <  1:9459067/68‑1 (MQ=255)

             tttttAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTAcc                                                       <  1:19908308/68‑1 (MQ=255)

             tttttAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTAcc                                                       >  1:14486598/1‑68 (MQ=255)

             tttttAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTAcc                                                       <  1:13875873/68‑1 (MQ=255)

             tgattAAAGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTAcc                                                       <  1:31714290/65‑1 (MQ=0)

              ttttAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGt                                                               <  1:39232938/59‑1 (MQ=255)

               tatAATGTGGCTGGGGTACGAGGATTCGAACCACGGAATGCCGGTATCAAAAACCGGTGCCTTACCGc                                                     <  1:28668422/66‑1 (MQ=11)

                ttAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCt                                                    <  1:2155281/68‑1 (MQ=40)

                ttAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCt                                                    >  1:39708587/1‑68 (MQ=40)

                ttAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCt                                                    >  1:32002107/1‑68 (MQ=40)

                ttAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCt                                                    <  1:25038528/68‑1 (MQ=40)

                  aaTGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTg                                                  >  1:35190217/1‑68 (MQ=37)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCATAATCCGGTGCCTTACCGCTTGGc                                                >  1:42317334/1‑68 (MQ=18)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCtttc                                                 >  1:4178683/1‑65 (MQ=18)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                                >  1:12136408/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                                >  1:6008813/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                                >  1:16386756/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                                >  1:10838209/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                                >  1:36385683/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                                >  1:36126474/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                                >  1:17626563/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                                <  1:17809210/68‑1 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                                >  1:1825452/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                                <  1:323900/68‑1 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                                <  1:19253326/68‑1 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                                >  1:19459002/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                                >  1:42628917/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                                >  1:22812556/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                                >  1:12629749/1‑68 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGc                                                <  1:23338202/68‑1 (MQ=33)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTCGc                                                >  1:10083281/1‑68 (MQ=18)

                    tgtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAAAAACCGGTGCCTTACCGCTTGGc                                                <  1:2546322/68‑1 (MQ=255)

                     gtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCg                                               >  1:25999148/1‑68 (MQ=31)

                                 cGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTg                                   <  1:35736084/68‑1 (MQ=33)

                                  gAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCaaaaa                                   >  1:36788096/1‑64 (MQ=1)

                                   aGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCaataa                                   >  1:1118886/1‑63 (MQ=1)

                                   aGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCaaaaa                                   >  1:24743958/1‑63 (MQ=1)

                                   aGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCaaaaa                                   >  1:43256947/1‑63 (MQ=1)

                                    ggATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTggg                                 <  1:3379819/67‑1 (MQ=37)

                                    ggATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTggg                                 <  1:37067385/67‑1 (MQ=37)

                                    ggATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTggg                                 <  1:18562617/67‑1 (MQ=37)

                                    ggATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTggg                                 <  1:26414455/67‑1 (MQ=37)

                                      aTTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTg                               <  1:1686263/67‑1 (MQ=40)

                                      aTTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTg                               <  1:37333297/67‑1 (MQ=40)

                                       ttCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGc                              <  1:20327591/67‑1 (MQ=255)

                                       ttCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGc                              <  1:550314/67‑1 (MQ=255)

                                       ttCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCa                             <  1:8686356/68‑1 (MQ=255)

                                       ttCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCa                             <  1:31272354/68‑1 (MQ=255)

                                         cGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACt                           <  1:9856413/68‑1 (MQ=255)

                                         cGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACt                           <  1:40181889/68‑1 (MQ=255)

                                         cGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACt                           <  1:34766347/68‑1 (MQ=255)

                                         cGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACt                           <  1:10524493/68‑1 (MQ=255)

                                         cGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACt                           <  1:27017938/68‑1 (MQ=255)

                                         cGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACt                           <  1:14882127/68‑1 (MQ=255)

                                         cGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACt                           <  1:2393995/68‑1 (MQ=255)

                                          gAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACtt                          <  1:13112230/68‑1 (MQ=255)

                                            aCCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACAGGGTGCAGttga                        >  1:15868188/1‑66 (MQ=11)

                                             ccTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACa                       <  1:9089312/68‑1 (MQ=255)

                                             ccTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACa                       <  1:22439505/68‑1 (MQ=255)

                                                 ggAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGt                   <  1:39538250/68‑1 (MQ=255)

                                                 ggAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGt                   <  1:15362244/68‑1 (MQ=255)

                                                 ggAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGt                   <  1:21821114/68‑1 (MQ=255)

                                                 ggAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGt                   <  1:41964842/68‑1 (MQ=255)

                                                      tccGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCg              <  1:28017654/67‑1 (MQ=255)

                                                        cGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTTGGTGCACTTACAAGGTAAGCGt             <  1:26733328/67‑1 (MQ=255)

                                                        cGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGt             <  1:4995369/67‑1 (MQ=255)

                                                        cGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGt             <  1:22265603/67‑1 (MQ=255)

                                                            aTCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGa        <  1:6586924/68‑1 (MQ=255)

                                                            aTCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGa        <  1:13597208/68‑1 (MQ=255)

                                                            aTCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGa        <  1:12364338/68‑1 (MQ=255)

                                                            aTCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGa        <  1:32914771/68‑1 (MQ=255)

                                                                  aTCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATaa    <  1:14010640/66‑1 (MQ=255)

GCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAAT  >  CP009273/691864‑691997

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: `‑`