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 F1 I2 R1	760	67.6	3323148	92.7%	3080558	109.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,085,824	G→A	Q30* (CAG→TAG)	speA ←	biosynthetic arginine decarboxylase, PLP‑binding

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,085,824	0	G	A	100.0%	220.5 / NA	68	Q30* (CAG→TAG)	speA	biosynthetic arginine decarboxylase, PLP‑binding
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (36/32); total (36/32)

GCGCGAGATCGACGCGAGCTTCCGGGACGTCCGGGTCCGGGCACACGCTAATGTGGCCCAGCTCGTTAACGTCATAGTAGTTATTGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTGGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCAAATTATTTTATTAAGTGTAAAACAGTTAACGACTAT  >  NC_000913/3085692‑3085958

gcgcGAGATCGACGCGAGCTTCCGGGACGTCCGGGTCCGGGCACACGCTAATGTGGCCCAGCTCGTTAACGTCATAGTAGTTATTGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCt                                                                                                                                  >  1:125613/1‑139 (MQ=255)

         cGACGCGAGCTTCCGGGACGTCCGGGTCCGGGCACACGCTAATGTGGCCCAGCTCGTTAACGTCATAGTAGTTATTGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAAc                                                                                                                         >  2:356699/1‑139 (MQ=255)

              cgAGCTTCCGGGACGTCCGGGTCCGGGCACACGCTAATGTGGCCCAGCTCGTTAACGTCATAGTAGTTATTGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAAcctcct                                                                                                                    >  1:1497821/1‑139 (MQ=255)

                        ggACGTCCGGGTCCGGGCACACGCTAATGTGGCCCAGCTCGTTAACGTCATAGTAGTTATTGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCg                                                                                                          <  1:457604/139‑1 (MQ=255)

                         gACGTCCGGGTCCGGGCACACGCTAATGTGGCCCAGCTCGTTAACGTCATAGTAGTTATTGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCgt                                                                                                         <  2:125613/139‑1 (MQ=255)

                              ccgggtccgggCACACGCTAATGTGGCCCAGCTCGTTAACGTCATAGTAGTTATTGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTac                                                                                                    >  1:829178/1‑139 (MQ=255)

                               cgggtccgggCACACGCTAATGTGGCCCAGCTCGTTAACGTCATAGTAGTTATTGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTaca                                                                                                   <  2:1497821/139‑1 (MQ=255)

                               cgggtccgggCACACGCTAATGTGGCCCAGCTCGTTAACGTCATAGTAGTTATTGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTaca                                                                                                   >  2:1388115/1‑139 (MQ=255)

                                       ggCACACGCTAATGTGGCCCAGCTCGTTAACGTCATAGTAGTTATTGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTg                                                                                                                             <  2:254305/105‑1 (MQ=255)

                                       ggCACACGCTAATGTGGCCCAGCTCGTTAACGTCATAGTAGTTATTGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTg                                                                                                                             >  1:254305/1‑105 (MQ=255)

                                        gCACACGCTAATGTGGCCCAGCTCGTTAACGTCATAGTAGTTATTGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCg                                                                                          <  2:829178/139‑1 (MQ=255)

                                                      ggCCCAGCTCGTTAACGTCATAGTAGTTATTGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAgg                                                                            >  2:702107/1‑139 (MQ=255)

                                                        cccAGCTCGTTAACGTCATAGTAGTTATTGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCa                                                                          <  2:1570815/139‑1 (MQ=255)

                                                                          tagtagTTATTGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATgtcgt                                                        <  1:356699/139‑1 (MQ=255)

                                                                             tagtTATTGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAg                                                     <  1:702107/139‑1 (MQ=255)

                                                                                  aTTGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGc                                                                                                                                   >  1:1509666/1‑56 (MQ=255)

                                                                                  aTTGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGc                                                                                                                                   <  2:1509666/56‑1 (MQ=255)

                                                                                    tGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCa                                                                          >  2:1307169/1‑111 (MQ=255)

                                                                                    tGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCa                                                                          <  1:1307169/111‑1 (MQ=255)

                                                                                     gCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCa                                                                          >  1:928859/1‑110 (MQ=255)

                                                                                     gCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCa                                                                          <  2:928859/110‑1 (MQ=255)

                                                                                     gCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCg                                             >  2:1373751/1‑139 (MQ=255)

                                                                                       cccACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGaa                                           >  2:681176/1‑139 (MQ=255)

                                                                                         caccaGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCgt                                                                                                         >  1:267871/1‑75 (MQ=255)

                                                                                         caccaGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCgt                                                                                                         <  2:267871/75‑1 (MQ=255)

                                                                                         caccaGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGc                                              >  2:85323/1‑134 (MQ=255)

                                                                                         caccaGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGc                                              <  1:85323/134‑1 (MQ=255)

                                                                                         caccaGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAAcg                                         >  1:1291285/1‑138 (MQ=255)

                                                                                          accaGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACAt                                                             >  1:1646378/1‑118 (MQ=255)

                                                                                          accaGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACAt                                                             <  2:1646378/118‑1 (MQ=255)

                                                                                          accaGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCt                                        >  1:1155981/1‑139 (MQ=255)

                                                                                              ggCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACGTCaaa                                    <  2:1291285/139‑1 (MQ=255)

                                                                                                cAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCAAatt                                  <  1:1336926/139‑1 (MQ=255)

                                                                                                        tAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCaaa                                    <  2:33163/129‑1 (MQ=255)

                                                                                                        tAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCaaa                                    >  1:33163/1‑129 (MQ=255)

                                                                                                        tAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCAAAttattttatt                          >  1:379875/1‑139 (MQ=255)

                                                                                                        tAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCAAAttattttatt                          <  1:681176/139‑1 (MQ=255)

                                                                                                        tAAGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCAAAttattttatt                          <  1:1373751/139‑1 (MQ=255)

                                                                                                         aaGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCgtag                                                                                                       <  2:763804/61‑1 (MQ=255)

                                                                                                         aaGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCgtag                                                                                                       >  1:763804/1‑61 (MQ=255)

                                                                                                          aGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGc                                                                                                                            >  1:687390/1‑39 (MQ=255)

                                                                                                          aGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGc                                                                                                                            <  2:687390/39‑1 (MQ=255)

                                                                                                          aGTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCAAATTATTTTATTaa                        >  1:638438/1‑139 (MQ=255)

                                                                                                           gTACGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCAAATTATTTTATTAAg                       >  2:1461740/1‑139 (MQ=255)

                                                                                                             aCGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATg                                                                                                               <  1:321298/49‑1 (MQ=255)

                                                                                                             aCGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCa                                                                          >  1:1468554/1‑86 (MQ=255)

                                                                                                             aCGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCa                                                                          <  2:1468554/86‑1 (MQ=255)

                                                                                                             aCGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATgtcg                                                         <  2:505274/103‑1 (MQ=255)

                                                                                                             aCGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATgtcg                                                         >  1:505274/1‑103 (MQ=255)

                                                                                                             aCGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACa                                                  >  2:176509/1‑110 (MQ=255)

                                                                                                             aCGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACa                                                  <  1:176509/110‑1 (MQ=255)

                                                                                                             aCGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCAAATTATTTTATTAAgtg                     >  1:83589/1‑139 (MQ=255)

                                                                                                             aCGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCAAATTATTTTATTAAgtg                     >  2:428924/1‑139 (MQ=255)

                                                                                                             aCGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCAAATTATTTTATTAAg                       >  1:447749/1‑137 (MQ=255)

                                                                                                             aCGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCAAATTATTTTATTAAg                       <  2:447749/137‑1 (MQ=255)

                                                                                                             aCGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCAGAATg                                                                                                               >  2:321298/1‑49 (MQ=255)

                                                                                                              cGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATg                                                            <  2:643670/99‑1 (MQ=255)

                                                                                                              cGCAGCATCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATg                                                            >  1:643670/1‑99 (MQ=255)

                                                                                                              cGCAGCATCTTGCTGGCTTCCTAGCAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCAAATTATTTTATTAAgtgt                    >  1:1012188/1‑139 (MQ=255)

                                                                                                                  gcaTCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCAAATTATTTTATTAAGTGTaaaa                <  2:1155981/139‑1 (MQ=255)

                                                                                                                   caTCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCAAATTATTTTATTAAGTGTAAAAc               <  1:428924/139‑1 (MQ=255)

                                                                                                                    aTCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCa                                                                          >  1:780735/1‑79 (MQ=255)

                                                                                                                    aTCTTGCTGGCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCa                                                                          <  2:780735/79‑1 (MQ=255)

                                                                                                                             gCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCAAAttattttatt                          <  1:1340258/118‑1 (MQ=255)

                                                                                                                             gCTTCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCAAAttattttatt                          >  2:1340258/1‑118 (MQ=255)

                                                                                                                                tCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGATGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCAAATTATTTTATTAAGTGTAAAACAGTTAACGACTAt  >  1:983131/1‑139 (MQ=255)

                                                                                                                                tCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATgtcgt                                                        <  2:692775/85‑1 (MQ=255)

                                                                                                                                tCCTAGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATgtcgt                                                        >  1:692775/1‑85 (MQ=255)

GCGCGAGATCGACGCGAGCTTCCGGGACGTCCGGGTCCGGGCACACGCTAATGTGGCCCAGCTCGTTAACGTCATAGTAGTTATTGCCCCACCAGGCAATATTGTAAGTACGCAGCATCTTGCTGGCTTCCTGGGAGCTCATTGCAACCTCCTGCATGGAGCGTAGTACACCGTGTTCGCCCGCTGACGAAGGCAAACCCATAGACATGTCGTCAGACATAGCGAACCTCAAATTATTTTATTAAGTGTAAAACAGTTAACGACTAT  >  NC_000913/3085692‑3085958

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A