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%	487.6 / NA	97	intergenic (+182/‑22)	ssrA/intA	tmRNA/CP4‑57 prophage; integrase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (45/52); total (45/52)

Only 100 of 103 total aligned reads displayed.

TTTAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGCCTAAACGCAGGGAGACTCCCCATGGCAAGAAAAACCAAGCCGTTA  >  NC_000913/2756088‑2756182

tttAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGc                                               >  1:5410493/1‑50 (MQ=255)

tttAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGc                                               >  1:6206726/1‑50 (MQ=255)

  tAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGct                                              <  1:5928116/49‑2 (MQ=255)

  tAGGCCCATTGATAGGCCCAACGAAAAGCGCTATTGTTTACGTTGGGct                                              <  1:6625406/49‑2 (MQ=255)

   aGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGcta                                             >  1:5283323/1‑47 (MQ=255)

   aGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGcta                                             >  1:593521/1‑47 (MQ=255)

     gCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAAc                                         <  1:466312/50‑1 (MQ=255)

     gCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAAc                                         <  1:3278674/50‑1 (MQ=255)

      cccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                        >  1:6290541/1‑50 (MQ=255)

      cccATTGATAGGCCCAACGAAAAGCTCAATTGTTTACGTTGGG‑CTAAACg                                        <  1:7079277/50‑1 (MQ=255)

       ccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                        >  1:1548890/1‑49 (MQ=255)

       ccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGc                                       <  1:500980/50‑1 (MQ=255)

        cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                        >  1:5722255/1‑48 (MQ=255)

        cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                        >  1:5890022/1‑48 (MQ=255)

        cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                        >  1:3987968/1‑48 (MQ=255)

        cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCa                                      <  1:4679496/50‑1 (MQ=255)

         aTTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAg                                     >  1:3297404/1‑50 (MQ=255)

          ttGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  1:3918132/1‑50 (MQ=255)

           tGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  1:7053380/1‑49 (MQ=255)

           tGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  1:4106274/1‑49 (MQ=255)

            gATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAggg                                   <  1:1322025/49‑1 (MQ=255)

            gATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAggg                                   <  1:1684086/49‑1 (MQ=255)

            gATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  1:1711199/1‑48 (MQ=255)

            gATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  1:6447627/1‑48 (MQ=255)

            gATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  1:6809214/1‑48 (MQ=255)

            gATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  1:221158/1‑48 (MQ=255)

            gATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  1:637393/1‑48 (MQ=255)

            gATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  1:1451025/1‑48 (MQ=255)

             aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGga                                  <  1:3652296/49‑1 (MQ=255)

             aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGga                                  <  1:1528925/49‑1 (MQ=255)

             aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGga                                  <  1:1017602/49‑1 (MQ=255)

              tAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGgaga                                <  1:4762964/50‑1 (MQ=255)

                ggCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACt                              >  1:5766935/1‑50 (MQ=255)

                 gCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTc                             <  1:2153664/50‑1 (MQ=255)

                 gCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTc                             >  1:5693037/1‑50 (MQ=255)

                 gCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTc                             <  1:1671967/50‑1 (MQ=255)

                 gCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTc                             <  1:3746843/50‑1 (MQ=255)

                  cccAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTcc                            >  1:5551778/1‑50 (MQ=255)

                  cccAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTcc                            <  1:7103912/50‑1 (MQ=255)

                   ccAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTccc                           <  1:4911852/50‑1 (MQ=255)

                    cAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTcccc                          <  1:5619717/50‑1 (MQ=255)

                    cAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTcccc                          <  1:5585608/50‑1 (MQ=255)

                    cAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTcccc                          <  1:4257227/50‑1 (MQ=255)

                    cAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTccc                           >  1:2697710/1‑49 (MQ=255)

                     aaCGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCA                         <  1:1649458‑M1/50‑1 (MQ=255)

                     aaCGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCA                         <  1:445136‑M1/50‑1 (MQ=255)

                      aCGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAc                        <  1:3507529‑M1/50‑2 (MQ=255)

                      aCGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAc                        <  1:5393810‑M1/50‑2 (MQ=255)

                      aCGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAc                        >  1:4411298‑M1/1‑49 (MQ=255)

                       cGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcc                       <  1:1268119‑M1/50‑3 (MQ=255)

                        gAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                      <  1:1195868‑M1/50‑4 (MQ=255)

                         aaaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctt                     >  1:1580498‑M1/1‑46 (MQ=255)

                         aaaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctt                     >  1:3367338‑M1/1‑46 (MQ=255)

                         aaaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctt                     <  1:2007563‑M1/50‑5 (MQ=255)

                          aaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                    >  1:4024325‑M1/1‑45 (MQ=255)

                          aaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                    <  1:6312296‑M1/50‑6 (MQ=255)

                          aaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                    >  1:4745893‑M1/1‑45 (MQ=255)

                          aaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                    <  1:2750506‑M1/50‑6 (MQ=255)

                          aaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                    <  1:3359660‑M1/50‑6 (MQ=255)

                           aaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCCcctttg                   <  1:5372469‑M1/50‑7 (MQ=255)

                           aaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                    >  1:4773681‑M1/1‑44 (MQ=255)

                            aGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttga                  <  1:3246618‑M1/50‑8 (MQ=255)

                            aGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttg                   >  1:6936270‑M1/1‑43 (MQ=255)

                            aGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttg                   >  1:3124298‑M1/1‑43 (MQ=255)

                             gCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaa                 <  1:4229954‑M1/50‑9 (MQ=255)

                              ctctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaa                 >  1:2897868‑M1/1‑41 (MQ=255)

                              ctctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaa                 >  1:5332086‑M1/1‑41 (MQ=255)

                              ctctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaa                 >  1:1761910‑M1/1‑41 (MQ=255)

                               tctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa               >  1:1014055‑M1/1‑40 (MQ=255)

                               tctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa               >  1:1860296‑M1/1‑40 (MQ=255)

                               tctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa               >  1:3622643‑M1/1‑40 (MQ=255)

                                ctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa               >  1:2705176‑M1/1‑39 (MQ=255)

                                 tATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa               <  1:2274995‑M1/48‑11 (MQ=255)

                                 tATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa               >  1:6789005‑M1/1‑38 (MQ=255)

                                 tATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa               >  1:372016‑M1/1‑38 (MQ=255)

                                 tATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa               >  1:1185542‑M1/1‑38 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGCCTCCCCAcctttgaaaacag            <  1:6062706‑M1/49‑14 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacagg           <  1:1216309‑M1/50‑15 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacag            >  1:1415509‑M1/1‑36 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacag            <  1:7085900‑M1/49‑14 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaaca             <  1:2770112‑M1/48‑13 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaac              <  1:6936380‑M1/47‑12 (MQ=255)

                                      tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatg        <  1:5249031‑M1/50‑18 (MQ=255)

                                      tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatg        >  1:4154766‑M1/1‑33 (MQ=255)

                                      tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatg        >  1:5864439‑M1/1‑33 (MQ=255)

                                      tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatg        <  1:5670687‑M1/50‑18 (MQ=255)

                                      tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatg        <  1:5453984‑M1/50‑18 (MQ=255)

                                      tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggat         <  1:1071162‑M1/49‑17 (MQ=255)

                                      tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggat         <  1:4485525‑M1/49‑17 (MQ=255)

                                      tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggat         <  1:2341210‑M1/49‑17 (MQ=255)

                                       ttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgtaaacaggatg        >  1:1208855‑M1/1‑32 (MQ=255)

                                       ttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatg        >  1:2022795‑M1/1‑32 (MQ=255)

                                          cGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagc    >  1:1687614‑M1/1‑29 (MQ=255)

                                          cGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtag     <  1:5094975‑M1/49‑21 (MQ=255)

                                           gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagcg   <  1:313150‑M1/50‑23 (MQ=255)

                                           gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagcg   <  1:5412499‑M1/50‑23 (MQ=255)

                                           gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagc    >  1:4526330‑M1/1‑28 (MQ=255)

                                           gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagc    >  1:3247905‑M1/1‑28 (MQ=255)

                                            ttGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagcga  <  1:6923932‑M1/50‑24 (MQ=255)

                                            ttGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagcga  <  1:4286904‑M1/50‑24 (MQ=255)

TTTAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGCCTAAACGCAGGGAGACTCCCCATGGCAAGAAAAACCAAGCCGTTA  >  NC_000913/2756088‑2756182

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 20 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`