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
A10 F28 I1 R1	180	66.5	2263572	99.4%	2249990	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,945,011	T→C	intergenic (+26/+25)	csdE → / ← tcdA	sulfur acceptor protein CsdE/tRNA threonylcarbamoyladenosine dehydratase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,945,011	0	T	C	100.0%	151.0 / NA	43	intergenic (+26/+25)	csdE/tcdA	sulfur acceptor protein CsdE/tRNA threonylcarbamoyladenosine dehydratase
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (23/20); total (23/20)

ACTGGCATTGTTTGATGAGCTGGGATTACGTGCGCAGCTTAGCGCCTCACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACAAACCCAAAGGTGGCGGTCACCATCGTTGCCGCGCCAAATCCAGATGCACAATC  >  NC_000913/2944877‑2945146

acTGGCATTGTTTGATGAGCTGGGATTACGTGCGCAGCTTAGCGCCTCACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTcgcg                                                                                                                                    >  1:47103/1‑140 (MQ=255)

 cTGGCATTGTTTGATGAGCTGGGATTACGTGCGCAGCTTAGCGCCTCACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGt                                                                                                                                   >  1:1078180/1‑140 (MQ=255)

   ggCATTGTTTGATGAGCTGGGATTACGTGCGCAGCTTAGCGCCTCACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGtct                                                                                                                                 >  2:398994/1‑140 (MQ=255)

     cATTGTTTGATGAGCTGGGATTACGTGCGCAGCTTAGCGCCTCACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCa                                                                                                                               <  2:47103/140‑1 (MQ=255)

      aTTGTTTGATGAGCTGGGATTACGTGCGCAGCTTAGCGCCTCACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCAt                                                                                                                              <  2:1078180/140‑1 (MQ=255)

         gTTTGATGAGCTGGGATTACGTGCGCAGCTTAGCGCCTCACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCg                                                                                                                           >  1:442632/1‑140 (MQ=255)

          tttGATGAGCTGGGATTACGTGCGCAGCTTAGCGCCTCACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGa                                                                                                                          <  1:68617/140‑1 (MQ=255)

           ttGATGAGCTGGGATTACGTGCGCAGCTTAGCGCCTCACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGAc                                                                                                                         <  2:91408/140‑1 (MQ=255)

               tgaGCTGGGATTACGTGCGCAGCTTAGCGCCTCACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGa                                                                                                                     <  2:442632/140‑1 (MQ=255)

                           aCGTGCGCAGCTTAGCGCCTCACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCt                                                                                                         <  2:351734/140‑1 (MQ=255)

                                cgcAGCTTAGCGCCTCACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGAcgc                                                                                                    >  1:194929/1‑140 (MQ=255)

                                  cAGCTTAGCGCCTCACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACgcgc                                                                                                  >  1:120306/1‑140 (MQ=255)

                                  cAGCTTAGCGCCTCACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACgcgc                                                                                                  >  1:21404/1‑140 (MQ=255)

                                        aGCGCCTCACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCttt                                                                                            <  2:194929/140‑1 (MQ=255)

                                            ccTCACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGcc                                                                                        >  2:648893/1‑140 (MQ=255)

                                             cTCACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCca                                                                                       >  2:1043498/1‑140 (MQ=255)

                                             cTCACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCca                                                                                       <  1:648893/140‑1 (MQ=255)

                                               cACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCcatc                                                                                     >  1:24090/1‑140 (MQ=255)

                                               cACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCcatc                                                                                     >  1:339789/1‑140 (MQ=255)

                                                            gTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAgcg                                                                        >  1:523636/1‑140 (MQ=255)

                                                                    cGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGaa                                                                >  2:61824/1‑140 (MQ=255)

                                                                     gTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGaaa                                                               >  2:72461/1‑140 (MQ=255)

                                                                      ttAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAAc                                                              >  2:833312/1‑140 (MQ=255)

                                                                            gAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGcaac                                                        <  1:72461/140‑1 (MQ=255)

                                                                             aGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGcaaca                                                       >  1:673937/1‑140 (MQ=255)

                                                                               gCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACaaa                                                     <  2:523636/140‑1 (MQ=255)

                                                                               gCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACaaa                                                     >  1:492598/1‑140 (MQ=255)

                                                                                   ttATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACAAACCCa                                                 >  2:909908/1‑140 (MQ=255)

                                                                                    tATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACAAACCCaa                                                <  2:21404/140‑1 (MQ=255)

                                                                                           gCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACAAACCCAAAGGTGGc                                         <  1:909908/140‑1 (MQ=255)

                                                                                                 aaGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACAAACCCAAAGGTGGCGGTCAc                                   >  2:1127637/1‑140 (MQ=255)

                                                                                                            aGCACAGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACAAACCCAAAGGTGGCGGTCACCATCGTTGCcg                        >  1:131401/1‑140 (MQ=255)

                                                                                                              cacaGAACCGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTATCCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACAAACCCAAAGGTGGCGGTCACCATCGTTGCcgcg                      >  2:870700/1‑140 (MQ=255)

                                                                                                                     ccGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACAAACCCAAAGGTGGCGGTCACCATCGTTGCCGCGCCAAATc               <  1:1127637/140‑1 (MQ=255)

                                                                                                                      cGGGTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACAAACCCAAAGGTGGCGGTCACCATCGTTGCCGCGCCAAATcc              <  1:642842/140‑1 (MQ=255)

                                                                                                                       gggTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACAAACCCAAAGGTGGCGGTCACCATCGTTGCCGCGCCAAATCCa             <  1:620463/140‑1 (MQ=255)

                                                                                                                        ggTCGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACAAACCCAAAGGTGGCGGTCACCATCGTTGCCGCGCCAAATCCAg            <  2:673937/140‑1 (MQ=255)

                                                                                                                           cGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACAAACCCAAAGGTGGCGGTCACCATCGTTGCCGCGCCAAATCCAGATg         <  2:339789/140‑1 (MQ=255)

                                                                                                                           cGGATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACAAACCCAAAGGTGGCGGTCACCATCGTTGCCGCGCCAAATCCAGATg         <  2:24090/140‑1 (MQ=255)

                                                                                                                            ggATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACAAACCCAAAGGTGGCGGTCACCATCGTTGCCGCGCCAAATCCAGATGc        <  1:689470/140‑1 (MQ=255)

                                                                                                                             gATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACAAACCCAAAGGTGGCGGTCACCATCGTTGCCGCGCCAAATCCAGATGca       <  2:50776/140‑1 (MQ=255)

                                                                                                                             gATAAGACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACAAACCCAAAGGTGGCGGTCACCATCGTTGCCGCGCCAAATCCAGATGca       >  1:489330/1‑140 (MQ=255)

                                                                                                                                  gACGCTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACAAACCCAAAGGTGGCGGTCACCATCGTTGCCGCGCCAAATCCAGATGCACAatc  >  2:82581/1‑140 (MQ=255)

ACTGGCATTGTTTGATGAGCTGGGATTACGTGCGCAGCTTAGCGCCTCACGCAGCCAGGGGTTAAATGCGTTAAGCGAGGCGATTATCGCTGCGACGAAGCAGGTTTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGTTTAACCCTGACGCGCCGCTTTCGCCATCATCTTCTTCAGCGCATGAGAAACCGCAACAAACCCAAAGGTGGCGGTCACCATCGTTGCCGCGCCAAATCCAGATGCACAATC  >  NC_000913/2944877‑2945146

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A