Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A3 F1 I1 R1	781	46.9	2231650	93.5%	2086592	109.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,410,406	T→C	S43P (TCT→CCT)	dusB →	tRNA‑dihydrouridine synthase B

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,410,406	0	T	C	97.9%	160.5 / NA	47	S43P (TCT→CCT)	dusB	tRNA‑dihydrouridine synthase B
Reads supporting (aligned to +/- strand): ref base T (0/1); new base C (23/23); total (23/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01

TTAACTCATGCGCATCGGACAATATCAGCTCAGAAATCGCCTGATCGCAGCGCCCATGGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGTCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAACCCGGTATTCGCACCGTGCAAATTGCTGGTAGCGATCCGAAAGAAATGGCAGATGCAGCACGTATTAA  >  NC_000913/3410273‑3410536

ttAACTCATGCGCATCGGACAATATCATCTCAGAAATCGCCTGATCGCAGCGCCCATGGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGACGCGGATTGACAGTATCCGGGATGATGccttct                                                                                                                               >  1:225219/1‑139 (MQ=255)

      cATGCGCATCGGACAATATCAGCTCAGAAATCGCCTGATCGCAGCGCCCATGGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCca                                                                                                                         <  2:431957/139‑1 (MQ=255)

       aTGCGCATCGGACAATATCAGCTCAGAAATCGCCTGATCGCAGCGCCCATGGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCcac                                                                                                                        >  2:840556/1‑139 (MQ=255)

       aTGCGCATCGGACAATATCAGCTCAGAAATCGCCTGATCGCAGCGCCCATGGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCcac                                                                                                                        >  1:83958/1‑139 (MQ=255)

       aTGCGCATCGGACAATATCAGCTCAGAAATCGCCTGATCGCAGCGCCCATGGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTAGCCGAGATGATGCCTTCTAACCcac                                                                                                                        >  1:622197/1‑139 (MQ=255)

         gcgcATCGGACAATATCAGCTCAGAAATCGCCTGATCGCAGCGCCCATGGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAg                                                                                                                      >  1:104730/1‑139 (MQ=255)

             aTCGGACAATATCAGCTCAGAAATCGCCTGATCGCAGCGCCCATGGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGttt                                                                                                                  <  2:987728/139‑1 (MQ=255)

              tCGGACAATATCAGCTCAGAAATCGCCTGATCGCAGCGCCCATCGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTg                                                                                                                 >  1:743451/1‑139 (MQ=255)

                           gCTCAGAAATCGCCTGATCGCAGCGCCCATGGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCca                                                                                                                         >  1:686944/1‑118 (MQ=255)

                           gCTCAGAAATCGCCTGATCGCAGCGCCCATGGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCca                                                                                                                         <  2:686944/118‑1 (MQ=255)

                            cTCAGAAATCGCCTGATCGCAGCGCCCATGGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAAt                                                                                                   <  2:179242/139‑1 (MQ=255)

                            cTCAGAAATCGCCTGATCGCAGCGCCCATGGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAAt                                                                                                   >  2:333994/1‑139 (MQ=255)

                            cTCAGAAATCGCCTGATCGCAGCGCCCATGGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAAt                                                                                                   >  1:179242/1‑139 (MQ=255)

                             tCAGAAATCGCCTGATCGCAGCGCCCATGGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAAtc                                                                                                  <  2:296861/139‑1 (MQ=255)

                              cAGAAATCGCCTGATCGCAGCGCCCATGGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAAtct                                                                                                 <  1:114893/139‑1 (MQ=255)

                                     cGCCTGATCGCAGCGCCCATGGCTGGCATTACAGACAGACCTTTTCGGACGATGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCCACAAATCTCGTTTAc                                                                                          <  2:743451/139‑1 (MQ=255)

                                        cTGATCGCAGCGCCCATGGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGa                                                                                       <  2:118738/139‑1 (MQ=255)

                                        cTGATCGCAGCGCCCATGGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGa                                                                                       <  2:842976/139‑1 (MQ=255)

                                                  cgcCCATGGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACAt                                                                             >  1:742468/1‑139 (MQ=255)

                                                        tggctggcATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGa                                                                                       <  1:252383/123‑1 (MQ=255)

                                                        tggctggcATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGa                                                                                       >  2:252383/1‑123 (MQ=255)

                                                            tggcATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAAccc                                                                   <  2:894335/139‑1 (MQ=255)

                                                            tggcATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAAccc                                                                   <  2:1022664/139‑1 (MQ=255)

                                                              gcATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAACCCgg                                                                 >  2:1074785/1‑139 (MQ=255)

                                                              gcATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAACCTCGTTTACGGATGGTGCACATTGATGAACCCgg                                                                 >  1:713875/1‑139 (MQ=255)

                                                                    cagacagaCCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAACCCGGTATTCg                                                           >  1:1024075/1‑139 (MQ=255)

                                                                      gacagacCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGTCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAACCCGGTATTCGCa                                                         <  2:713875/139‑1 (MQ=255)

                                                                          gacCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAACCCGGTATTCGCACCGt                                                     >  1:875733/1‑139 (MQ=255)

                                                                           acCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGAGca                                                                                >  1:945353/1‑111 (MQ=255)

                                                                           acCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGAGca                                                                                <  2:945353/111‑1 (MQ=255)

                                                                                 tCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATAAACCCGGTATTCGCACCGTGCAAAtt                                              >  2:708022/1‑139 (MQ=255)

                                                                                          gtgCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAACCCGGTATTCGCACCGTGCAAATTGCTGGTAGc                                     >  1:793601/1‑139 (MQ=255)

                                                                                                  agaTGGGAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAACCCGGTATTCGCACCGTGCAAATTGCTGGTAGCGATCCgaa                             >  1:787431/1‑139 (MQ=255)

                                                                                                      gggAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGTGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAACCCGGTATTCGCACCGTGCAAATTGCTGGCAGCGATCCgaaagaa                         <  2:742468/139‑1 (MQ=255)

                                                                                                      gggAGCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAACCCGGTATTCGCACCGTGCAAATTGCTGGTAGCGATCCgaaagaa                         <  2:875733/139‑1 (MQ=255)

                                                                                                          gCCGGATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAACCCGGTATTCGCACCGTGCAAATTGCTGGTAGCGATCCGAAAGAAATgg                     >  1:761957/1‑139 (MQ=255)

                                                                                                             ggATTGACAGTATCCGAGATGATGCCTTCTAACCcac                                                                                                                        >  2:571520/1‑37 (MQ=255)

                                                                                                             ggATTGACAGTATCCGAGATGATGCCTTCTAACCcac                                                                                                                        <  1:571520/37‑1 (MQ=255)

                                                                                                              gATTGACAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAACCCGGTATTCGCACCGTGCAAATTGCTGGTAGCGATCCGAAAGAAATGGCAGa                 <  1:854209/139‑1 (MQ=255)

                                                                                                                   aCAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAACCCGGTATTCGCACCGTGCAAATTGCTGGTAg                                      <  2:41718/113‑1 (MQ=255)

                                                                                                                   aCAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAACCCGGTATTCGCACCGTGCAAATTGCTGGTAg                                      >  1:41718/1‑113 (MQ=255)

                                                                                                                   aCAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAACCCGGTATTCGCACCGTGCAAATTGCTGGTAGCGATCCGAAAGAAATGGCAGATgcag            <  1:1092659/139‑1 (MQ=255)

                                                                                                                    cAGTATCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAACCCGGTATTCGCACGGTGCAAATTGCTGGTAGCGATCCGAAAGAAATGGCAGATgcagc           <  2:787431/139‑1 (MQ=255)

                                                                                                                         tCCGAGATGATGCCTTCTAACCCACAGGTTTGTGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAACCCGGTATTCGCACCGTGCAAATTGCTGGTAGCGATCCGAAAGAAATGGCAGATGCAGCACGTa      <  2:225219/139‑1 (MQ=255)

                                                                                                                         tCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAAccc                                                                   >  2:23690/1‑78 (MQ=255)

                                                                                                                         tCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAAccc                                                                   <  1:23690/78‑1 (MQ=255)

                                                                                                                         tCCGAGATGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTATACGGATGGTGCACATTGATGAACCCGGTATTCGCACCGCGCAAATTGCTTGTAGCGATCCGAAAGAAATGGCAGATGCAGCACGTa      <  1:708022/139‑1 (MQ=255)

                                                                                                                             agaTGATGCCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAACCCGGTATTCGCACCGTGCAAATTGCTGGTAGCGATCCGAAAGAAATGGCAGATGCAGCACGTATTaa  >  2:103902/1‑139 (MQ=255)

TTAACTCATGCGCATCGGACAATATCAGCTCAGAAATCGCCTGATCGCAGCGCCCATGGCTGGCATTACAGACAGACCTTTTCGGACGTTGTGCTACGAGATGGGAGCCGGATTGACAGTATCCGAGATGATGTCTTCTAACCCACAGGTTTGGGAAAGCGACAAATCTCGTTTACGGATGGTGCACATTGATGAACCCGGTATTCGCACCGTGCAAATTGCTGGTAGCGATCCGAAAGAAATGGCAGATGCAGCACGTATTAA  >  NC_000913/3410273‑3410536

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A