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
A11 F212 I1 R1	174	80.0	3892211	96.7%	3763768	99.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,580,094	C→T	D233N (GAT→AAT)	ydeM ←	putative YdeN‑specific sulfatase‑maturating enzyme

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,580,094	0	C	T	98.8%	282.5 / ‑4.3	81	D233N (GAT→AAT)	ydeM	putative YdeN‑specific sulfatase‑maturating enzyme
Reads supporting (aligned to +/- strand): ref base C (1/0); new base T (33/47); total (34/47)
Fisher's exact test for biased strand distribution p-value = 4.20e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.05e-01

CCTTGCAGGACTCCTGGAAAATACAACTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATCGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTTCTCACTAT  >  NC_000913/1579998‑1580189

ccTTGCAGGACTCCTGGAAAATACAACTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGtt                                                                                              >  2:418317/1‑100 (MQ=255)

 cTTGCAGGACTCCTGGAAAATACAACTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGttt                                                                                             >  2:786224/1‑100 (MQ=255)

  ttGCAGGACTCCTGGAAAATACAACTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGtttt                                                                                            <  1:1861262/100‑1 (MQ=255)

   tGCAGGACTCCTGGAAAATACAACTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGttttt                                                                                           >  1:1127174/1‑100 (MQ=255)

    gCAGGACTCCTGGAAAATACAACTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTa                                                                                          <  2:1397074/100‑1 (MQ=255)

     cAGGACTCCTGGAAAATACAACTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTaa                                                                                         >  2:1148080/1‑100 (MQ=255)

      aGGACTCCTGGAAAATACAACTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAAc                                                                                        <  2:97253/100‑1 (MQ=255)

      aGGACTCCTGGAAAATACAACTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAAc                                                                                        <  2:1742095/100‑1 (MQ=255)

            ccTGGAAAATACAACTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTg                                                                                  >  2:276548/1‑100 (MQ=255)

            ccTGGAAAATACAACTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTg                                                                                  <  2:1907813/100‑1 (MQ=255)

             cTGGAAAATACAACTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTg                                                                                  <  1:1752697/99‑1 (MQ=255)

             cTGGAAAATACAACTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGc                                                                                 >  2:1764922/1‑100 (MQ=255)

              tgaaaaaTACAACTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGc                                                                                 <  1:83583/96‑1 (MQ=255)

              tGGAAAATACAACTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCa                                                                                <  1:1901742/100‑1 (MQ=255)

                gAAAATACAACTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATa                                                                              >  2:1146393/1‑100 (MQ=255)

                 aaaaTACAACTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATaa                                                                             <  1:518937/100‑1 (MQ=255)

                   aaTACAACTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATaaaa                                                                           >  1:413976/1‑100 (MQ=255)

                         aCTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGtt                                                                     <  1:149612/100‑1 (MQ=255)

                         aCTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGtt                                                                     <  2:1558311/100‑1 (MQ=255)

                         aCTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGtt                                                                     >  2:416640/1‑100 (MQ=255)

                          cTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTg                                                                    <  2:58391/100‑1 (MQ=255)

                            ggTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGAc                                                                  <  1:141066/100‑1 (MQ=255)

                            ggTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGAc                                                                  <  2:836242/100‑1 (MQ=255)

                            ggTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGAc                                                                  <  2:836323/100‑1 (MQ=255)

                             gTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACTGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACa                                                                 <  1:1544120/100‑1 (MQ=255)

                             gTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACa                                                                 <  1:655838/100‑1 (MQ=255)

                             gTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACa                                                                 >  2:1066471/1‑100 (MQ=255)

                             gTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACa                                                                 <  2:85726/100‑1 (MQ=255)

                              tATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACAt                                                                >  1:285393/1‑100 (MQ=255)

                               aTGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATa                                                               <  1:487651/100‑1 (MQ=255)

                                 gCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATCGTTTTTAACCCATTGCATAAAAATGGTTGACATaaa                                                             >  2:493844/1‑100 (MQ=255)

                                  cccATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAAc                                                            <  1:151163/100‑1 (MQ=255)

                                       tCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGcc                                                       <  1:1847866/100‑1 (MQ=255)

                                       tCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGcc                                                       <  2:777480/100‑1 (MQ=255)

                                       tCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGcc                                                       <  2:1000158/100‑1 (MQ=255)

                                         cccAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCAt                                                     >  2:681665/1‑100 (MQ=255)

                                         cccAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCAt                                                     >  1:1675518/1‑100 (MQ=255)

                                                  cagCTGACAACGCTTTCAAACTGCATGAACACAATTCCCCCCACATTGTCTTTAACCCATTGCATAACACTGTTTGACAAACACTTGCCATAAGCCGTgg                                            <  1:1842162/98‑1 (MQ=255)

                                                   ggCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTggg                                           >  1:1865622/1‑100 (MQ=255)

                                                    gCTGACAAAGCTTTCAAACTGACGGATGAGAATTTCACCCACATTGTTTTTAACCCATTGCATAAATATGGTTGACATAAACTTGCCATAAGCCGTgggn                                          <  1:1169082/100‑2 (MQ=255)

                                                     cTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAg                                         >  2:708125/1‑100 (MQ=255)

                                                      tGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAgg                                        <  2:1558227/100‑1 (MQ=255)

                                                      tGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAgg                                        <  1:1808271/100‑1 (MQ=255)

                                                      tGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAgg                                        >  1:1558216/1‑100 (MQ=255)

                                                      tGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAgg                                        >  2:1726385/1‑100 (MQ=255)

                                                      tGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAg                                         >  1:147702/1‑99 (MQ=255)

                                                      tGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGCGGGa                                          >  1:812207/1‑98 (MQ=255)

                                                       gACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTATCCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGc                                       >  1:254566/1‑100 (MQ=255)

                                                       gACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGc                                       <  1:347332/100‑1 (MQ=255)

                                                       gACAAAGCTTTCAAACTGACGGACGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGc                                       >  2:1646341/1‑100 (MQ=255)

                                                         cgatcttttCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGcac                                     <  2:69944/94‑1 (MQ=255)

                                                         cAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGc                                       <  1:451223/98‑1 (MQ=255)

                                                           aaGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAg                                   >  2:437098/1‑100 (MQ=255)

                                                            aGCTTTCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGa                                  >  1:362474/1‑100 (MQ=255)

                                                               tttCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGatcg                               >  1:69944/1‑97 (MQ=255)

                                                               tttCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGaaaa                               <  1:1148079/100‑1 (MQ=255)

                                                               tttCAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGaaaa                               <  2:1127175/100‑1 (MQ=255)

                                                                  cAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATc                            <  1:418315/100‑1 (MQ=255)

                                                                  cAAACTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAACCCGTGGGAGGCACAGAAAAATc                            <  1:276546/100‑1 (MQ=255)

                                                                   aaaCTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCa                           >  2:669699/1‑100 (MQ=255)

                                                                   aaaCTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCa                           <  2:518285/100‑1 (MQ=255)

                                                                    aaCTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCaa                          >  2:510449/1‑100 (MQ=255)

                                                                     aCTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAAt                         <  1:533401/100‑1 (MQ=255)

                                                                     aCTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAAt                         <  1:715429/100‑1 (MQ=255)

                                                                     aCTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAAt                         <  2:1268277/100‑1 (MQ=255)

                                                                      cTGACGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAAt                         <  1:1116454/99‑1 (MQ=255)

                                                                         aCGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATa                     <  2:1935739/100‑1 (MQ=255)

                                                                         aCGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATa                     <  1:1631429/100‑1 (MQ=255)

                                                                          cGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATa                     <  1:798547/99‑1 (MQ=255)

                                                                          cGGATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATAc                    <  1:429910/100‑1 (MQ=255)

                                                                          cGGATGAAAATTTCAACCACATTGTTTATAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAATCCGTTGGAGGCACAGAAAAATCAATGATAc                    <  1:186166/100‑1 (MQ=255)

                                                                           ggATGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACg                   >  2:1844697/1‑100 (MQ=255)

                                                                              tGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACCGCAAAATCAATGATACgg                  >  2:357734/1‑98 (MQ=255)

                                                                              tGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGaa                >  1:1217378/1‑100 (MQ=255)

                                                                              tGAAAATTTCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGaa                <  2:24184/100‑1 (MQ=255)

                                                                                     ttCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTtc         >  2:1474133/1‑100 (MQ=255)

                                                                                      tCACCCACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTtct        <  2:1763584/100‑1 (MQ=255)

                                                                                        tcccACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTTCTCa      >  1:205947/2‑100 (MQ=255)

                                                                                         cccACATTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTTCTCAc     >  2:1811591/1‑100 (MQ=255)

                                                                                            acaTTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTTCTCACTAt  <  1:786222/100‑1 (MQ=255)

                                                                                            acaTTGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTTCTCACTAt  >  2:1361341/1‑100 (MQ=255)

CCTTGCAGGACTCCTGGAAAATACAACTGGTATGCCCATTCCCCAAAAAACGGCTGACAAAGCTTTCAAACTGACGGATGAAAATTTCACCCACATCGTTTTTAACCCATTGCATAAAAATGGTTGACATAAACTTGCCATAAGCCGTGGGAGGCACAGAAAAATCAATGATACGGAATGTGTTCTCACTAT  >  NC_000913/1579998‑1580189

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A