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%	590.5 / NA	117	intergenic (+182/‑22)	ssrA/intA	tmRNA/CP4‑57 prophage; integrase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (63/54); total (63/54)

Only 100 of 127 total aligned reads displayed.

TTAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGCCTAAACGCAGGGAGACTCCCCATGGCAAGAAAAACCAAGCCGTT  >  NC_000913/2756089‑2756181

ttAGGCCCATTGATAGGCCCAACGAGAAGCTCTATTGTTTACGTTGGGc                                              >  1:497505/1‑49 (MQ=255)

ttAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGc                                              <  1:739065/49‑1 (MQ=255)

ttAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGc                                              >  1:3772027/1‑49 (MQ=255)

ttAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGc                                              <  1:1787079/49‑1 (MQ=255)

 tAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGct                                             >  1:3534048/1‑48 (MQ=255)

 tAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGct                                             <  1:5469445/49‑2 (MQ=255)

  aGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGcta                                            <  1:8601002/49‑3 (MQ=255)

  aGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGcta                                            >  1:6806376/1‑47 (MQ=255)

    gCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAAc                                        <  1:1796059/50‑1 (MQ=255)

     cccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                       >  1:6596287/1‑50 (MQ=255)

     cccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                       <  1:8093643/50‑1 (MQ=255)

     cccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                       <  1:3876655/50‑1 (MQ=255)

     cccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                       <  1:1537072/50‑1 (MQ=255)

      ccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                       >  1:7653146/1‑49 (MQ=255)

      ccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGc                                      <  1:934140/50‑1 (MQ=255)

      ccATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGc                                      <  1:523893/50‑1 (MQ=255)

       cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                       >  1:1588465/1‑48 (MQ=255)

       cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACg                                       >  1:1505728/1‑48 (MQ=255)

       cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCa                                     <  1:7768846/50‑1 (MQ=255)

       cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCa                                     <  1:6786457/50‑1 (MQ=255)

       cATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCa                                     <  1:2336357/50‑1 (MQ=255)

        aTTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAg                                    <  1:2938349/50‑1 (MQ=255)

        aTTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAg                                    >  1:3364640/1‑50 (MQ=255)

         ttGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                   >  1:2047981/1‑50 (MQ=255)

         ttGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                   <  1:1126577/50‑1 (MQ=255)

         ttGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                   <  1:6284410/50‑1 (MQ=255)

         ttGATAGGCCCAACGAAAAGCTCTATTGTGTACGTTGGG‑CTAAACGCAgg                                   <  1:6936620/50‑1 (MQ=255)

          tGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                   >  1:7438195/1‑49 (MQ=255)

          tGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                   >  1:5493075/1‑49 (MQ=255)

          tGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                   >  1:5279437/1‑49 (MQ=255)

          tGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                   >  1:3159806/1‑49 (MQ=255)

           gATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAggg                                  <  1:6461756/49‑1 (MQ=255)

           gATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                   >  1:4200482/1‑48 (MQ=255)

           gATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                   >  1:203131/1‑48 (MQ=255)

           gATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAgg                                   >  1:1966898/1‑48 (MQ=255)

            aTAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGga                                 <  1:7792570/49‑1 (MQ=255)

              aGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGAc                              >  1:5673303/1‑50 (MQ=255)

              aGGCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGAc                              >  1:4302567/1‑50 (MQ=255)

               ggCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACt                             <  1:3293296/50‑1 (MQ=255)

               ggCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACt                             <  1:7625332/50‑1 (MQ=255)

                gCCCAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTc                            >  1:789507/1‑50 (MQ=255)

                  ccAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTccc                          <  1:6871171/50‑1 (MQ=255)

                   cAACGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTccc                          >  1:596304/1‑49 (MQ=255)

                    aaCGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCA                        >  1:6517105‑M1/1‑50 (MQ=255)

                    aaCGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCA                        <  1:3034528‑M1/50‑1 (MQ=255)

                    aaCGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCA                        >  1:8287030‑M1/1‑50 (MQ=255)

                     aCGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAc                       >  1:4601762‑M1/1‑49 (MQ=255)

                      cGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcc                      <  1:857123‑M1/50‑3 (MQ=255)

                      cGAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcc                      <  1:6837669‑M1/50‑3 (MQ=255)

                       gAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                     >  1:1172102‑M1/1‑47 (MQ=255)

                       gAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                     >  1:2588580‑M1/1‑47 (MQ=255)

                       gAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                     <  1:6903324‑M1/50‑4 (MQ=255)

                       gAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                     >  1:2791353‑M1/1‑47 (MQ=255)

                       gAAAAGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcct                     >  1:3765112‑M1/1‑47 (MQ=255)

                        aaaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctt                    >  1:8043754‑M1/1‑46 (MQ=255)

                        aaaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctt                    >  1:4849961‑M1/1‑46 (MQ=255)

                         aaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                   <  1:4179778‑M1/50‑6 (MQ=255)

                         aaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                   >  1:6084518‑M1/1‑45 (MQ=255)

                         aaaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                   <  1:4999513‑M1/50‑6 (MQ=255)

                          aaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttg                  <  1:748208‑M1/50‑7 (MQ=255)

                          aaGCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAccttt                   >  1:2725441‑M1/1‑44 (MQ=255)

                            gCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaa                <  1:4687702‑M1/50‑9 (MQ=255)

                            gCTCTATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaa                <  1:1923394‑M1/50‑9 (MQ=255)

                             ctctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaa                >  1:1418652‑M1/1‑41 (MQ=255)

                              tctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa              >  1:3529823‑M1/1‑40 (MQ=255)

                              tctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa              >  1:7682944‑M1/1‑40 (MQ=255)

                               ctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa              >  1:8281549‑M1/1‑39 (MQ=255)

                               ctATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa              >  1:3796547‑M1/1‑39 (MQ=255)

                                tATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa              >  1:4416685‑M1/1‑38 (MQ=255)

                                tATTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaa              >  1:8595178‑M1/1‑38 (MQ=255)

                                 aTTGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacag           >  1:4287978‑M1/1‑37 (MQ=255)

                                  ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacagg          <  1:8008164‑M1/50‑15 (MQ=255)

                                  ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacag           >  1:3967262‑M1/1‑36 (MQ=255)

                                  ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaaca            <  1:1083328‑M1/48‑13 (MQ=255)

                                  ttGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaaca            <  1:7403350‑M1/48‑13 (MQ=255)

                                   tGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacagga         >  1:6298893‑M1/1‑35 (MQ=255)

                                   tGTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacagga         >  1:2294972‑M1/1‑35 (MQ=255)

                                    gTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggat        >  1:2736855‑M1/1‑34 (MQ=255)

                                    gTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggat        >  1:3061442‑M1/1‑34 (MQ=255)

                                    gTTTACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacagga         <  1:2442267‑M1/49‑16 (MQ=255)

                                     tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatg       >  1:2069380‑M1/1‑33 (MQ=255)

                                     tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatg       >  1:3562456‑M1/1‑33 (MQ=255)

                                     tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggat        <  1:3669470‑M1/49‑17 (MQ=255)

                                     tttACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggat        <  1:3282902‑M1/49‑17 (MQ=255)

                                       tACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgt      <  1:3808868‑M1/49‑19 (MQ=255)

                                       tACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgt      <  1:1768749‑M1/49‑19 (MQ=255)

                                       tACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatg       >  1:3270239‑M1/1‑31 (MQ=255)

                                       tACGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatg       >  1:8251260‑M1/1‑31 (MQ=255)

                                        aCGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtag    >  1:6989322‑M1/1‑30 (MQ=255)

                                        aCGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtag    >  1:3859117‑M1/1‑30 (MQ=255)

                                        aCGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgta     <  1:1042824‑M1/49‑20 (MQ=255)

                                        aCGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgta     <  1:8066311‑M1/49‑20 (MQ=255)

                                        aCGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgta     <  1:5915897‑M1/49‑20 (MQ=255)

                                        aCGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgta     <  1:6504675‑M1/49‑20 (MQ=255)

                                         cGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagc   <  1:7595958‑M1/50‑22 (MQ=255)

                                         cGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagc   <  1:1103757‑M1/50‑22 (MQ=255)

                                         cGTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtag    <  1:4981389‑M1/49‑21 (MQ=255)

                                          gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagcg  <  1:1261694‑M1/50‑23 (MQ=255)

                                          gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagcg  <  1:5361612‑M1/50‑23 (MQ=255)

                                          gTTGGG‑CTAAACGCAGGGAGACTCCCCAcctttgaaaacaggatgtagc   >  1:134076‑M1/1‑28 (MQ=255)

TTAGGCCCATTGATAGGCCCAACGAAAAGCTCTATTGTTTACGTTGGGCCTAAACGCAGGGAGACTCCCCATGGCAAGAAAAACCAAGCCGTT  >  NC_000913/2756089‑2756181

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`