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%	613.2 / NA	122	intergenic (+182/‑22)	ssrA/intA	tmRNA/CP4‑57 prophage; integrase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (56/66); total (56/66)

Only 100 of 130 total aligned reads displayed.

TTTAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGCCTAAACGCAGGGAGACTCCCCATGGCAAGAAAAACCAAGCCGTTA  >  NC_000913/2756088‑2756182

tttAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGc                                               >  1:1534921/1‑50 (MQ=255)

  tAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGct                                              >  2:4600830/1‑48 (MQ=255)

  tAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGct                                              <  2:4795893/49‑2 (MQ=255)

  tAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGct                                              >  2:36118/1‑48 (MQ=255)

  tAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGct                                              >  1:2569858/1‑48 (MQ=255)

   aGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGcta                                             <  2:3881220/49‑3 (MQ=255)

     gCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAAc                                         <  1:3424599/50‑1 (MQ=255)

     gCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAAc                                         >  1:5542250/1‑50 (MQ=255)

     gCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAAc                                         <  1:3557356/50‑1 (MQ=255)

     gCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAAc                                         <  1:3597877/50‑1 (MQ=255)

      cccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                        <  2:5559753/50‑1 (MQ=255)

      cccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                        <  1:2949102/50‑1 (MQ=255)

      cccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                        >  2:2285242/1‑50 (MQ=255)

        cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                        >  2:1669872/1‑48 (MQ=255)

        cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                        >  1:566846/1‑48 (MQ=255)

        cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                        >  1:787576/1‑48 (MQ=255)

        cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                        >  2:4114106/1‑48 (MQ=255)

        cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                        >  2:2924006/1‑48 (MQ=255)

        cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCa                                      <  2:3040463/50‑1 (MQ=255)

         aTTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAg                                     >  1:1707572/1‑50 (MQ=255)

         aTTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAg                                     >  2:156735/1‑50 (MQ=255)

          ttGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    <  1:1376140/50‑1 (MQ=255)

          ttGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  2:2277439/1‑50 (MQ=255)

            gATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAggg                                   <  2:1750631/49‑1 (MQ=255)

             aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  1:2428186/1‑47 (MQ=255)

             aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  1:1476947/1‑47 (MQ=255)

             aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                    >  2:5210200/1‑47 (MQ=255)

             aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGgag                                 <  1:1946529/50‑1 (MQ=255)

             aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGga                                  <  2:744068/49‑1 (MQ=255)

             aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGga                                  <  2:3466528/49‑1 (MQ=255)

             aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGga                                  <  1:5662213/49‑1 (MQ=255)

              tAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGgaga                                <  1:3646998/50‑1 (MQ=255)

               aGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGAc                               >  1:4207699/1‑50 (MQ=255)

                ggCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGAc                               <  2:2879302/49‑1 (MQ=255)

                ggCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACt                              >  2:130873/1‑50 (MQ=255)

                 gCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTc                             <  2:5428878/50‑1 (MQ=255)

                  cccAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGATACTcc                            >  1:5092909/1‑50 (MQ=255)

                   ccAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTccc                           >  1:4691416/1‑50 (MQ=255)

                    cAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTcccc                          <  2:2798444/50‑1 (MQ=255)

                    cAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTccc                           >  1:3104363/1‑49 (MQ=255)

                    cAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTccc                           >  2:2176255/1‑49 (MQ=255)

                     aaCGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCA                         >  1:1805293‑M1/1‑50 (MQ=255)

                     aaCGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCA                         <  2:2717307‑M1/50‑1 (MQ=255)

                      aCGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAc                        <  2:3576193‑M1/50‑2 (MQ=255)

                       cGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcc                       >  2:958720‑M1/1‑48 (MQ=255)

                       cGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcc                       >  1:2020708‑M1/1‑48 (MQ=255)

                       cGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcc                       <  1:3878455‑M1/50‑3 (MQ=255)

                        gAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                      <  2:1788101‑M1/50‑4 (MQ=255)

                        gAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                      >  2:3324433‑M1/1‑47 (MQ=255)

                        gAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                      <  1:2398821‑M1/50‑4 (MQ=255)

                        gAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                      >  2:1532038‑M1/1‑47 (MQ=255)

                        gAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                      <  1:866646‑M1/50‑4 (MQ=255)

                        gAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                      <  1:5696415‑M1/50‑4 (MQ=255)

                        gAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                      <  2:106403‑M1/50‑4 (MQ=255)

                        gAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                      >  2:4102198‑M1/1‑47 (MQ=255)

                        gAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                      >  2:3943938‑M1/1‑47 (MQ=255)

                         aaaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctt                     >  2:1322085‑M1/1‑46 (MQ=255)

                          aaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                    >  1:2428468‑M1/1‑45 (MQ=255)

                          aaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                    >  1:4849388‑M1/1‑45 (MQ=255)

                           aaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttg                   <  1:4803839‑M1/50‑7 (MQ=255)

                           aaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttg                   <  1:3377177‑M1/50‑7 (MQ=255)

                           aaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                    >  2:4934875‑M1/1‑44 (MQ=255)

                           aaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                    >  1:4305721‑M1/1‑44 (MQ=255)

                            aactctatTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttga                  <  1:3539834‑M1/48‑8 (MQ=255)

                            aGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttga                  <  1:4603030‑M1/50‑8 (MQ=255)

                            aGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttga                  <  2:2692759‑M1/50‑8 (MQ=255)

                            aGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCACAcctttg                   >  2:4236844‑M1/1‑43 (MQ=255)

                             gCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaa                 <  1:4940396‑M1/50‑9 (MQ=255)

                              ctctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaa                <  2:2027045‑M1/50‑10 (MQ=255)

                              ctctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaa                <  2:4415343‑M1/50‑10 (MQ=255)

                              ctctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaa                 >  2:5054846‑M1/1‑41 (MQ=255)

                              ctctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaa                 >  1:1374739‑M1/1‑41 (MQ=255)

                                ctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa               >  2:4968159‑M1/1‑39 (MQ=255)

                                 tATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa               >  2:3418418‑M1/1‑38 (MQ=255)

                                 tATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa               >  2:1094098‑M1/1‑38 (MQ=255)

                                  aTTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacag            >  1:3481207‑M1/1‑37 (MQ=255)

                                  aTTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacag            >  2:3784857‑M1/1‑37 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacagg           <  1:1325064‑M1/50‑15 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacagg           <  1:3142116‑M1/50‑15 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacag            <  2:2678579‑M1/49‑14 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacag            <  1:5378532‑M1/49‑14 (MQ=255)

                                   ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaaca             <  1:3772136‑M1/48‑13 (MQ=255)

                                    tGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacagga          >  1:4912317‑M1/1‑35 (MQ=255)

                                     gTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggat         >  2:1282981‑M1/1‑34 (MQ=255)

                                      tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatg        >  1:3942319‑M1/1‑33 (MQ=255)

                                      tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatg        <  2:1662442‑M1/50‑18 (MQ=255)

                                      tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggat         <  2:654687‑M1/49‑17 (MQ=255)

                                        tACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgt       <  2:4027171‑M1/49‑19 (MQ=255)

                                        tACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgt       <  1:4358845‑M1/49‑19 (MQ=255)

                                        tACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatg        >  1:599956‑M1/1‑31 (MQ=255)

                                         aCGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgta      <  2:5016630‑M1/49‑20 (MQ=255)

                                         aCGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgta      <  1:2041178‑M1/49‑20 (MQ=255)

                                          cGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtag     <  2:5471346‑M1/49‑21 (MQ=255)

                                          cGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtag     <  1:75545‑M1/49‑21 (MQ=255)

                                           gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagcg   <  2:4454403‑M1/50‑23 (MQ=255)

                                           gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagcg   <  2:2112509‑M1/50‑23 (MQ=255)

                                           gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagc    >  1:5536167‑M1/1‑28 (MQ=255)

                                           gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagc    >  2:5248554‑M1/1‑28 (MQ=255)

                                           gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagc    >  2:1167418‑M1/1‑28 (MQ=255)

                                            ttGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagcga  <  2:3231876‑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: `‑`