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%	637.7 / NA	128	intergenic (+182/‑22)	ssrA/intA	tmRNA/CP4‑57 prophage; integrase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (39/89); total (39/89)

Only 100 of 138 total aligned reads displayed.

TTTAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGCCTAAACGCAGGGAGACTCCCCATGGCAAGAAAAACCAAGCCGTT  >  NC_000913/2756088‑2756181

tttAGGCCCATTGAAAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGc                                              >  2:4842621/1‑50 (MQ=255)

 ttAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGc                                              >  1:2731188/1‑49 (MQ=255)

 ttAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGc                                              <  2:5708850/49‑1 (MQ=255)

  tAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGct                                             >  2:5009659/1‑48 (MQ=255)

   aGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGcta                                            <  1:3524535/49‑3 (MQ=255)

   aGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGcta                                            <  2:1814663/49‑3 (MQ=255)

   aGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGcta                                            <  2:1590079/49‑3 (MQ=255)

     gCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAAc                                        <  2:5167262/50‑1 (MQ=255)

     gCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAAc                                        <  1:1289645/50‑1 (MQ=255)

     gCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAAc                                        <  2:3910974/50‑1 (MQ=255)

     gCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAAc                                        <  1:4169749/50‑1 (MQ=255)

      cccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                       <  1:4140316/50‑1 (MQ=255)

      cccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                       >  2:5722573/1‑50 (MQ=255)

      cccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                       <  2:1348518/50‑1 (MQ=255)

      cccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                       <  1:2131070/50‑1 (MQ=255)

      cccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                       >  1:2026139/1‑50 (MQ=255)

        cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                       >  2:4233797/1‑48 (MQ=255)

        cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                       >  2:787243/1‑48 (MQ=255)

        cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCa                                     <  1:4158526/50‑1 (MQ=255)

         aTTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAg                                    <  1:5742739/50‑1 (MQ=255)

         aTTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAg                                    <  2:4446989/50‑1 (MQ=255)

         aTTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAg                                    <  1:1581069/50‑1 (MQ=255)

          ttGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                   <  2:1659381/50‑1 (MQ=255)

          ttGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                   <  1:3296720/50‑1 (MQ=255)

           tGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                   >  2:5419018/1‑49 (MQ=255)

           tGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                   >  1:4158544/1‑49 (MQ=255)

            gATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                   >  2:5226679/1‑48 (MQ=255)

             aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGgag                                <  2:1216234/50‑1 (MQ=255)

             aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGgag                                <  1:3605117/50‑1 (MQ=255)

              tAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGgaga                               <  2:1022179/50‑1 (MQ=255)

              tAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGgaga                               >  2:3752468/1‑50 (MQ=255)

              tAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGgaga                               <  1:4703294/50‑1 (MQ=255)

               aGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGAc                              >  2:3658814/1‑50 (MQ=255)

               aGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGAc                              >  1:614355/1‑50 (MQ=255)

               aGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGAc                              >  2:4430846/1‑50 (MQ=255)

                ggCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGAc                              <  2:2992291/49‑1 (MQ=255)

                ggCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGAc                              <  2:5411497/49‑1 (MQ=255)

                ggCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACt                             <  1:2932581/50‑1 (MQ=255)

                ggCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACt                             <  1:2272380/50‑1 (MQ=255)

                ggCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACt                             <  1:2832565/50‑1 (MQ=255)

                 gCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTc                            >  1:284340/1‑50 (MQ=255)

                 gCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTc                            >  2:3259162/1‑50 (MQ=255)

                  cccAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTcc                           <  2:4457339/50‑1 (MQ=255)

                  cccAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTcc                           <  2:1349002/50‑1 (MQ=255)

                  cccAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTcc                           <  1:608420/50‑1 (MQ=255)

                   ccAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTccc                          <  1:3590306/50‑1 (MQ=255)

                   ccAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTccc                          >  2:3764235/1‑50 (MQ=255)

                   ccAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTccc                          <  1:2245992/50‑1 (MQ=255)

                    cAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTcccc                         <  2:4824763/50‑1 (MQ=255)

                    cAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTccc                          >  1:4463762/1‑49 (MQ=255)

                      aCGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAc                       >  2:1691429‑M1/1‑49 (MQ=255)

                      aCGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAc                       <  2:2468475‑M1/50‑2 (MQ=255)

                       cGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcc                      <  1:5581821‑M1/50‑3 (MQ=255)

                        gAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                     >  1:1037315‑M1/1‑47 (MQ=255)

                          aaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                   <  2:3139204‑M1/50‑6 (MQ=255)

                          aaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                   <  2:2823226‑M1/50‑6 (MQ=255)

                          aaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                   <  1:4884790‑M1/50‑6 (MQ=255)

                          aaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                   <  1:4949140‑M1/50‑6 (MQ=255)

                           aaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttg                  <  2:3201058‑M1/50‑7 (MQ=255)

                           aaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttg                  <  1:2788697‑M1/50‑7 (MQ=255)

                           aaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                   >  1:3663705‑M1/1‑44 (MQ=255)

                            aGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttga                 <  2:123615‑M1/50‑8 (MQ=255)

                            aGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttg                  >  1:1976401‑M1/1‑43 (MQ=255)

                             gCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttga                 >  1:4286838‑M1/1‑42 (MQ=255)

                              ctctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaa               <  2:3963691‑M1/50‑10 (MQ=255)

                               tctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa              >  1:5410247‑M1/1‑40 (MQ=255)

                                 tATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa              >  2:1788276‑M1/1‑38 (MQ=255)

                                 tATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa              <  1:4015975‑M1/48‑11 (MQ=255)

                                 tATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa              >  2:3364253‑M1/1‑38 (MQ=255)

                                 tATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa              <  2:1332190‑M1/48‑11 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacagg          <  1:3781813‑M1/50‑15 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacag           >  2:3277721‑M1/1‑36 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacag           <  2:2868012‑M1/49‑14 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacag           <  1:5088625‑M1/49‑14 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaaca            <  1:4406976‑M1/48‑13 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaaca            <  2:5786089‑M1/48‑13 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaac             <  2:3530905‑M1/47‑12 (MQ=255)

                                    tGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacagga         >  1:3032741‑M1/1‑35 (MQ=255)

                                     gTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggat        >  2:4695499‑M1/1‑34 (MQ=255)

                                      tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCCcctttgaaaacaggat        <  1:1864558‑M1/49‑17 (MQ=255)

                                      tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatg       >  1:1840412‑M1/1‑33 (MQ=255)

                                      tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggat        <  2:4795669‑M1/49‑17 (MQ=255)

                                      tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttcaaaccaggctg       >  2:2540106‑M1/1‑33 (MQ=255)

                                        tACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacatgatgt      <  2:3187011‑M1/49‑19 (MQ=255)

                                        tACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgt      <  1:5713551‑M1/49‑19 (MQ=255)

                                         aCGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgta     <  1:3151519‑M1/49‑20 (MQ=255)

                                         aCGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgta     <  1:3224347‑M1/49‑20 (MQ=255)

                                         aCGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgta     <  1:5033905‑M1/49‑20 (MQ=255)

                                         aCGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgta     <  1:1485024‑M1/49‑20 (MQ=255)

                                          cGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagc   <  1:884726‑M1/50‑22 (MQ=255)

                                          cGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagc   <  1:4059371‑M1/50‑22 (MQ=255)

                                           gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagcg  <  1:122210‑M1/50‑23 (MQ=255)

                                           gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagcg  <  2:4718938‑M1/50‑23 (MQ=255)

                                           gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagcg  <  1:5477536‑M1/50‑23 (MQ=255)

                                           gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagcg  <  1:2591536‑M1/50‑23 (MQ=255)

                                           gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagcg  <  1:2423498‑M1/50‑23 (MQ=255)

                                           gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagcg  <  1:1707484‑M1/50‑23 (MQ=255)

                                           gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagc   >  2:1795055‑M1/1‑28 (MQ=255)

                                           gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagc   >  2:1171043‑M1/1‑28 (MQ=255)

                                           gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagc   >  2:90774‑M1/1‑28 (MQ=255)

TTTAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGCCTAAACGCAGGGAGACTCCCCATGGCAAGAAAAACCAAGCCGTT  >  NC_000913/2756088‑2756181

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 17 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`