BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,756,138	Δ1 bp	intergenic (+183/‑21)	ssrA → / → intA	tmRNA/CP4‑57 prophage; integrase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,756,137	0	C	.	100.0%	273.8 / NA	55	intergenic (+182/‑22)	ssrA/intA	tmRNA/CP4‑57 prophage; integrase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (29/26); total (29/26)

TTTAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGCCTAAACGCAGGGAGACTCCCCATGGCAAGAAAAACCAAGCCGTTA  >  NC_000913/2756088‑2756182

tttAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGc                                               >  1:1273983/1‑50 (MQ=255)

tttAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGc                                               >  1:4605103/1‑50 (MQ=255)

   aGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGcta                                             <  1:3182218/49‑3 (MQ=255)

     gCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAAc                                         >  1:3520631/1‑50 (MQ=255)

     gCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAAc                                         <  1:2190146/50‑1 (MQ=255)

      cccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                        <  1:5081765/50‑1 (MQ=255)

        cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCa                                      <  1:662750/50‑1 (MQ=255)

         aTTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAg                                     >  1:414162/1‑50 (MQ=255)

          ttGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  1:2803730/1‑50 (MQ=255)

            gATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  1:192984/1‑48 (MQ=255)

            gATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  1:3695655/1‑48 (MQ=255)

            gATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  1:4247949/1‑48 (MQ=255)

             aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  1:824192/1‑47 (MQ=255)

             aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  1:489921/1‑47 (MQ=255)

             aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  1:3412614/1‑47 (MQ=255)

              tAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGgaga                                <  1:2162772/50‑1 (MQ=255)

              tAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGgaga                                >  1:4522596/1‑50 (MQ=255)

               aGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGAc                               >  1:4126330/1‑50 (MQ=255)

                ggCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGAc                               <  1:297477/49‑1 (MQ=255)

                ggCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGAc                               <  1:483714/49‑1 (MQ=255)

                ggCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACt                              <  1:3623611/50‑1 (MQ=255)

                 gCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTc                             >  1:2745612/1‑50 (MQ=255)

                 gCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTc                             <  1:4413684/50‑1 (MQ=255)

                  cccAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTcc                            >  1:4630369/1‑50 (MQ=255)

                   ccAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTccc                           <  1:4929876/50‑1 (MQ=255)

                   ccAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTccc                           >  1:1864547/1‑50 (MQ=255)

                    cAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTcccc                          <  1:2014522/50‑1 (MQ=255)

                     aaCGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCA                         <  1:3018420‑M1/50‑1 (MQ=255)

                       cGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcc                       <  1:3125640‑M1/50‑3 (MQ=255)

                       cGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcc                       <  1:4383028‑M1/50‑3 (MQ=255)

                       cGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcc                       <  1:2362659‑M1/50‑3 (MQ=255)

                        gAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                      >  1:5035771‑M1/1‑47 (MQ=255)

                         aaaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctt                     >  1:3864973‑M1/1‑46 (MQ=255)

                          aaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                    <  1:3341482‑M1/50‑6 (MQ=255)

                          aaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                    >  1:3261453‑M1/1‑45 (MQ=255)

                           aaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttg                   <  1:1488244‑M1/50‑7 (MQ=255)

                           aaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttg                   <  1:1302120‑M1/50‑7 (MQ=255)

                            aGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttg                   >  1:3371226‑M1/1‑43 (MQ=255)

                              ctctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaa                <  1:1093635‑M1/50‑10 (MQ=255)

                              ctctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaa                 >  1:2961612‑M1/1‑41 (MQ=255)

                               tctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa               >  1:5092879‑M1/1‑40 (MQ=255)

                                ctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa               >  1:4269327‑M1/1‑39 (MQ=255)

                                 tATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa               >  1:3097162‑M1/1‑38 (MQ=255)

                                 tATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa               >  1:4493549‑M1/1‑38 (MQ=255)

                                  aTTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacag            >  1:3848924‑M1/1‑37 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacagg           <  1:800450‑M1/50‑15 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacagg           <  1:4842934‑M1/50‑15 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacag            <  1:922688‑M1/49‑14 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaaca             <  1:1365567‑M1/48‑13 (MQ=255)

                                    tGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacagga          >  1:1450908‑M1/1‑35 (MQ=255)

                                      tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatg        <  1:5122838‑M1/50‑18 (MQ=255)

                                        tACATTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatg        >  1:2079704‑M1/1‑31 (MQ=255)

                                         aCGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtag     >  1:2775166‑M1/1‑30 (MQ=255)

                                         aCGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgta      <  1:3726529‑M1/49‑20 (MQ=255)

                                          cGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagc    <  1:5011188‑M1/50‑22 (MQ=255)

                                          cGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagc    <  1:4486229‑M1/50‑22 (MQ=255)

                                           gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagc    >  1:4326001‑M1/1‑28 (MQ=255)

                                            ttGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagcga  >  1:597499‑M1/1‑27 (MQ=255)

TTTAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGCCTAAACGCAGGGAGACTCCCCATGGCAAGAAAAACCAAGCCGTTA  >  NC_000913/2756088‑2756182

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`