BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP009273	2,511,629	A→T	5.3%	intergenic (‑34/+6)	alaX ← / ← alaW	tRNA‑Ala/tRNA‑Ala

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP009273	2,511,629	0	A	T	5.3%	1171.6 / 2.1	391	intergenic (‑34/+6)	alaX/alaW	tRNA‑Ala/tRNA‑Ala
Reads supporting (aligned to +/- strand): ref base A (242/121); new base T (9/19); total (251/140)
Fisher's exact test for biased strand distribution p-value = 3.96e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 398 total aligned reads displayed.

CATGCAAGCGCTCTCCCAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAGCGCTCTCCCAGC  >  CP009273/2511562‑2511696

catgcAAGCGCTCTCCCAGCTGAGCTATAGCCCCGCGAGGCGATTACGTACCAAGTTTGCGGGGTGCa                                                                     >  1:1191488/1‑68 (MQ=21)

catgcAAGCGCTCTCCCAGCTGAGCTATAGCCCCGCGACGGTTTTAGGTACCAAGTTTCGTGCGTGCa                                                                     >  1:8204147/1‑68 (MQ=14)

 atgcAAGCGCTCTCCCAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGCGTGCaa                                                                    <  1:6500332/68‑1 (MQ=255)

  tgcAAGCGCTCTCCCAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCaaa                                                                   <  1:10940883/68‑1 (MQ=255)

    cAAGCGCTCTCCCAGCTGAGCTATAGCCCCGCGATGCGTTTACGTTCCAAGTGTGCTGGGTGCAAAAt                                                                 >  1:2372928/1‑68 (MQ=25)

    cAAGCGCTCTCCCAGCTGAGCTATAGCCCCCGGATGGGTTTAGGTACCAAGTTACCTGGGTGAAAAAt                                                                 >  1:5523252/1‑68 (MQ=18)

    cAAGCGCTCTCCCAGCTGAGCTATAGCCCCCCGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAAt                                                                 >  1:13773691/1‑68 (MQ=255)

    cAAGCGCTCTCCCAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAAt                                                                 >  1:5221687/1‑68 (MQ=255)

     aaGCGCTCTCCCAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAAt                                                                 <  1:18366365/67‑1 (MQ=255)

      aGCGCTCTCCCAGCTGAGCTATAGCCCCGGCATGGGTTTACGTACCAAGTTAGGTGGGTGCAAAAttt                                                               >  1:16126307/1‑68 (MQ=21)

      aGCGCTCTCCCAGCTGAGCTATAGCCCCGCGATGCGTTTACGTTCCAAGTTAGCGGGGGGAAAAAttt                                                               >  1:11581671/1‑68 (MQ=21)

      aGCGCTCTCCCAGCTGAGCTATAGCCCCGCGAGGCGTTTACGTACCAAGTTTGCTGGGGGCAAAAttt                                                               >  1:7795366/1‑68 (MQ=37)

      aGCGCTCTCCCAGCTGAGCTATAGCCCCGCGAGGCGTTTACGTACCAAGTTTCCTGGGGGCAAAAttt                                                               >  1:1504838/1‑68 (MQ=25)

      aGCGCTCTCCCAGCTGAGCTATAGCCCCGCGAGGCGTTTAATTACCAAGTTTCCTGGGTGCAAAAttt                                                               >  1:27025510/1‑68 (MQ=21)

      aGCGCTCTCCCAGCTGAGCTATAGCCCCCGGAGGGGTTTAGGTACCAATTTTCGTGGGGCCAAAAttt                                                               >  1:25061396/1‑68 (MQ=12)

      aGCGCTCTCCCAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAAttt                                                               >  1:22697064/1‑68 (MQ=255)

      aGCGCTCTCCCAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAAttt                                                               >  1:18230011/1‑68 (MQ=255)

        cgcTCTCCCAGCTGAGCTATAGCCCCCCGATGCGTTTACGTACCAAGTTTGGTGGGTGCAAAATTtgt                                                             >  1:20850767/1‑67 (MQ=38)

         gcTCTCCCAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTtggt                                                            >  1:231971/1‑68 (MQ=255)

         gcTCTCCCAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTtggt                                                            >  1:16348266/1‑68 (MQ=255)

            ctcCCAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGa                                                         <  1:27105106/68‑1 (MQ=255)

              cccAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGc                                                       <  1:12407009/68‑1 (MQ=255)

               ccAGCTGAGCTATAGCCCCGGGATGGGTTTAAGTACCAAGTTAGGTGGGTGCTAATTTTGGTGGCGCt                                                      >  1:27186450/1‑68 (MQ=19)

               ccAGCTGAGCTATAGCCCCGCGAGGCGTTTACGTACCAAGTTTGCGGCGGGAAAAATTTGGTTGAGCt                                                      >  1:4471428/1‑68 (MQ=25)

                 accTGAGCTATAGCCCCACGATTCGTTAACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTaa                                                    <  1:1996936/66‑1 (MQ=255)

                 aGCTGAGCTATAGCCCCGAGAAGCGTTTACGTACCAAGTTAGGGGGGTGCAAATTTTGGTTGAGCaaa                                                    >  1:890078/1‑68 (MQ=255)

                 aGCTGAGCTATAGCCCCACGATGGGTTTACGTACCAAGTTTCCTGGGTGCAAAATTTGGTGGAGCTaa                                                    >  1:314122/1‑68 (MQ=255)

                 aGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAAATTGGTGGAGCTaa                                                    >  1:3477610/1‑68 (MQ=255)

                  gCTGAGCTATAGCCCCCCGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTaa                                                    >  1:17551883/1‑67 (MQ=255)

                  gCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTaa                                                    >  1:24247464/1‑67 (MQ=255)

                   cTGAGCTATAGCCCCGCGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGc                                                  >  1:10707891/1‑68 (MQ=255)

                   cTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGc                                                  >  1:16603794/1‑68 (MQ=255)

                   cTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGc                                                  >  1:1106660/1‑68 (MQ=255)

                   cTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGGGCAAAATTTGCTGGAGCTAAGc                                                  >  1:2236489/1‑68 (MQ=255)

                   cTGAGCTATAGCCCCACGAAGCGTTTACGTACCAAGTTTGCTGGGGGCTAAATTTGGTGGAGCTAAGc                                                  >  1:14264186/1‑68 (MQ=39)

                    tgtgCTATATGCCCACGATTCTTTTACGTTCCAAGTTTGCTGGGTGGAAAATTTGGTGGAGCTaa                                                    <  1:14482893/62‑1 (MQ=255)

                    tccgCTATACCCCCACGAACCGTATACGTACCAAGGTTGCTGGGTGCAAAATTTGGTGGAGCTaa                                                    <  1:29229664/62‑1 (MQ=255)

                    tGAGCTATAGCCCCACTATGCTTTTACGTACCAAGTTTGGTGGGTGCAAAATTTGGTGGAGCTaa                                                    <  1:179862/65‑1 (MQ=255)

                    tGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCTAAATTTGGTGGAGCTaa                                                    <  1:4846909/65‑1 (MQ=255)

                    tGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTaa                                                    <  1:22617019/65‑1 (MQ=255)

                    tGAGCTATAGCCCCACGATGCGTATACGCACCAAGCTTGCTGGGTGCAAAATTTGGTGGAGCTaa                                                    <  1:544506/65‑1 (MQ=255)

                         tataGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATc                                            >  1:15539936/1‑68 (MQ=255)

                             gCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGaa                                         >  1:4329956/1‑67 (MQ=255)

                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCTGGATCGAAcc                                       >  1:14918668/1‑68 (MQ=255)

                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                       >  1:19259798/1‑68 (MQ=255)

                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                       >  1:2480387/1‑68 (MQ=255)

                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                       >  1:27506447/1‑68 (MQ=255)

                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                       >  1:2782467/1‑68 (MQ=255)

                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                       >  1:28325791/1‑68 (MQ=255)

                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                       >  1:21258969/1‑68 (MQ=255)

                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                       >  1:1278518/1‑68 (MQ=255)

                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                       >  1:14626369/1‑68 (MQ=255)

                              ccccACGATGCGTTTACGAACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                       >  1:2419275/1‑68 (MQ=255)

                               cccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                       >  1:12117456/1‑67 (MQ=255)

                               cccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                       >  1:16900219/1‑67 (MQ=255)

                               cccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                       >  1:13225119/1‑67 (MQ=255)

                                ccACGATGCGATTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGc                                     <  1:15860153/68‑1 (MQ=255)

                                   cGATGCGAATACGAACCAAGCTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGa                                  <  1:7332263/68‑1 (MQ=21)

                                    gATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGa                                  >  1:6725927/1‑67 (MQ=255)

                                    gATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGa                                  >  1:7420063/1‑67 (MQ=255)

                                    gATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGa                                  >  1:9686210/1‑67 (MQ=255)

                                    gATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGa                                  >  1:19839909/1‑67 (MQ=255)

                                    gATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGa                                  >  1:1530865/1‑67 (MQ=255)

                                    gATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGa                                  >  1:12587661/1‑67 (MQ=255)

                                      tGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGAGTGATCGAACCGCTGAAct                               >  1:28771932/1‑68 (MQ=37)

                                      tGCGTTTACGTACCAAGATTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACct                               <  1:3800531/68‑1 (MQ=255)

                                        cttttACGTACCAAGTTTGGTGGGTTCTAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACctct                             <  1:22104258/66‑1 (MQ=18)

                                        ccattACGTACCAAGTTTGCTGGGTTCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACctct                             <  1:229903/65‑1 (MQ=255)

                                        cGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACctct                             >  1:21903220/1‑68 (MQ=255)

                                         gattACGTACCAAGTTTGCTGGGTTCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACctct                             <  1:28382207/65‑1 (MQ=255)

                                         gTTTACGTACCAAGTATGCTGGGTTCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACctct                             <  1:26719051/67‑1 (MQ=255)

                                          tttACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCtt                            >  1:23918431/1‑67 (MQ=255)

                                            tACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGca                         >  1:24976820/1‑68 (MQ=255)

                                            tACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGca                         >  1:11354597/1‑68 (MQ=255)

                                             aCGTACCAAGGTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcat                        <  1:24531025/68‑1 (MQ=255)

                                              cGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatg                       <  1:19360814/68‑1 (MQ=255)

                                              cGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcat                        >  1:21701074/1‑67 (MQ=255)

                                              cGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcat                        >  1:10300498/1‑67 (MQ=255)

                                              cGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcat                        >  1:26383496/1‑67 (MQ=255)

                                                 cccAAGTATGCTGGGTGCTAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatgcc                     <  1:28181604/66‑1 (MQ=17)

                                                 aCCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatgcca                    >  1:9036010/1‑68 (MQ=255)

                                                 aCCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatgcca                    >  1:9201295/1‑68 (MQ=255)

                                                 aCCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatgcca                    >  1:10006940/1‑68 (MQ=255)

                                                 aCCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatgcca                    >  1:2112813/1‑68 (MQ=255)

                                                 aCCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatgcca                    >  1:20503122/1‑68 (MQ=255)

                                                   cAAGTTTCCAGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatgccatg                  <  1:19035007/68‑1 (MQ=255)

                                                      gTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGCCCTCTTGCATGCCATGCaa               >  1:26071558/1‑68 (MQ=255)

                                                      gTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCaa               >  1:14038520/1‑68 (MQ=255)

                                                      gTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCaa               >  1:25272653/1‑68 (MQ=255)

                                                       tttGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCATGCATGCCATGCaa               >  1:29009839/1‑67 (MQ=255)

                                                        ttGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAg              <  1:17797614/67‑1 (MQ=255)

                                                           cTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAgcgc           >  1:13508536/1‑67 (MQ=255)

                                                            tGGGTTCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGCCCTCTTGCATGCCATGCAAGCGct          <  1:6342838/67‑1 (MQ=255)

                                                            tGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAgcgc           >  1:17723151/1‑66 (MQ=255)

                                                            tGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAgcgc           >  1:9413858/1‑66 (MQ=255)

                                                            tGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAgcgc           >  1:18852420/1‑66 (MQ=255)

                                                            tGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAGCGctc         <  1:15259985/68‑1 (MQ=255)

                                                             gggTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAGCGctc         >  1:2561542/1‑67 (MQ=255)

                                                               gTGCTAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAGCGCtctc       <  1:18607840/67‑1 (MQ=18)

                                                                  cAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAGCGCTCTCCCAg   <  1:26566568/68‑1 (MQ=33)

CATGCAAGCGCTCTCCCAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAGCGCTCTCCCAGC  >  CP009273/2511562‑2511696

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: `‑`