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
A5 F1 I2 R1	772	77.0	3769570	91.6%	3452926	105.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,436,670	C→T	G75D (GGT→GAT)	ompN ←	outer membrane pore protein N, non‑specific

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,436,670	0	C	T	100.0%	191.0 / NA	58	G75D (GGT→GAT)	ompN	outer membrane pore protein N, non‑specific
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (28/30); total (28/30)

CATTACGCCATAATTACGTCCGTAATCGAAAGAACCGTAATCTGCAAATTTCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGACCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCAGAAAAATAATGCAGGCCATCAACTTTGCCATACAGATCTAAT  >  NC_000913/1436537‑1436801

cATTACGCCATAATTACGTCCGTAATCGAAAGAACCGTAATCTGCAAATTTCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAg                                                                                                                                <  1:1572854/139‑1 (MQ=255)

   tACGCCATAATTACGTCCGTAATCGAAAGAACCGTAATCTGCAAATTTCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCa                                                                                                                             >  1:826698/1‑139 (MQ=255)

   tACGCCATAATTACGTCCGTAATCGAAAGAACCGTAATCTGCAAATTTCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCa                                                                                                                             >  1:1813206/1‑139 (MQ=255)

     cGCCATAATTACGTCCGTAATCGAAAGAACCGTAATCTGCAAATTTCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGt                                                                                                                           >  2:337133/1‑139 (MQ=255)

     cGCCATAATTACGTCCGTAATCGAAAGAACCGTAATCTGCAAATTTCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGt                                                                                                                           >  1:312481/1‑139 (MQ=255)

     cGCCATAATTACGTCCGTAATCGAAAGAACCGTAATCTGCAAATTTCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGt                                                                                                                           >  1:1884438/1‑139 (MQ=255)

     cGCCATAATTACGTCCGTAATCGAAAGAACCGTAATCTGCAAATTTCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGt                                                                                                                           >  1:1608350/1‑139 (MQ=255)

           aaTTACGTCCGTAATCGAAAGAACCGTAATCTGCAAATTTCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTg                                                                                                                     >  2:1608504/1‑139 (MQ=255)

                   ccGTAATCGAAAGAACCGTAATCTGCAAATTTCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTaa                                                                                                             >  1:990445/1‑139 (MQ=255)

                   ccGTAATCGAAAGAACCGTAATCTGCAAATTTCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTaa                                                                                                             >  2:165433/1‑139 (MQ=255)

                      tAATCGAAAGAACCGTAATCTGCAAATTTCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAAttt                                                                                                          >  1:1165243/1‑139 (MQ=255)

                              aGAACCGTAATCTGCAAATTTCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCg                                                                                                  <  2:1884438/139‑1 (MQ=255)

                               gAACCGTAATCTGCAAATTTCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGc                                                                                                 <  1:1608504/139‑1 (MQ=255)

                                 aCCGTAATCTGCAAATTTCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCt                                                                                               <  1:291424/139‑1 (MQ=255)

                                    gTAATCTGCAAATTTCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTa                                                                                            <  2:1813206/139‑1 (MQ=255)

                                          tGCAAATTTCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAAccc                                                                                      >  2:424976/1‑139 (MQ=255)

                                            cAAATTTCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAg                                                                                    <  1:424976/139‑1 (MQ=255)

                                                 ttCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGAcgcg                                                                               <  2:413187/139‑1 (MQ=255)

                                                   cAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCa                                                                             <  2:826698/139‑1 (MQ=255)

                                                    aGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATAGTTAATTTGGGTTTc                                                                                                   <  1:1257144/116‑1 (MQ=255)

                                                    aGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTCTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGCTCGTTAATTTGGGTTTc                                                                                                   >  2:1257144/1‑116 (MQ=255)

                                                        cGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGct                                                                        <  2:943030/139‑1 (MQ=255)

                                                           cAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGAc                                                                                  >  1:456868/1‑126 (MQ=255)

                                                           cAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGAc                                                                                  <  2:456868/126‑1 (MQ=255)

                                                                gCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGAcgcg                                                                               <  2:1451450/124‑1 (MQ=255)

                                                                gCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGAcgcg                                                                               >  1:1451450/1‑124 (MQ=255)

                                                                    gACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGtt                                                                                                                      >  1:1801738/1‑81 (MQ=255)

                                                                    gACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGtt                                                                                                                      <  2:1801738/81‑1 (MQ=255)

                                                                         gTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATCTTTCg                                                       >  2:546793/1‑139 (MQ=255)

                                                                                    gTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCa                                                                                                                             >  2:219942/1‑58 (MQ=255)

                                                                                    gTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCa                                                                                                                             <  1:219942/58‑1 (MQ=255)

                                                                                    gTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGGCGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCa                                            >  1:1149395/1‑139 (MQ=255)

                                                                                     ttttttGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCAg                                           <  2:1165243/139‑1 (MQ=255)

                                                                                          tGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCAGaaaaa                                      <  2:312481/139‑1 (MQ=255)

                                                                                                          tttGCCTGAATGTTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCAGAAAAATAATGCAGGCCATCaa                      <  2:1219163/139‑1 (MQ=255)

                                                                                                          tttGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCAGAAAAATAATGCAGGCCATCaa                      <  2:382341/139‑1 (MQ=255)

                                                                                                          tttGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCAGAAAAATAATGCAGGCCATCaa                      >  1:382341/1‑139 (MQ=255)

                                                                                                           ttGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCAGAAAAATAATGCAGGCCa                          <  2:1345102/134‑1 (MQ=255)

                                                                                                           ttGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCAGAAAAATAATGCAGGCCa                          >  1:1345102/1‑134 (MQ=255)

                                                                                                            tGCCTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGGCGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCAGAAAAATAATGCAGGCCATCAACt                    <  2:1149395/139‑1 (MQ=255)

                                                                                                               cTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCAGAAAAATAATGCAGGCCATCaa                      >  1:1712429/1‑134 (MQ=255)

                                                                                                               cTGAATATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCAGAAAAATAATGCAGGCCATCaa                      <  2:1712429/134‑1 (MQ=255)

                                                                                                                  aaTATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTa                                                                                            <  1:208135/61‑1 (MQ=255)

                                                                                                                  aaTATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTa                                                                                            >  2:208135/1‑61 (MQ=255)

                                                                                                                  aaTATTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATC‑‑TCGCTGAATTATCAGAAAAATAATGCAGGCCATCAACTTTGCCATa            <  1:165433/139‑1 (MQ=255)

                                                                                                                    tatTGTATTCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCAGAAAAATAATGCAGGCCATCAACTTTGCCATa            <  2:1608350/139‑1 (MQ=255)

                                                                                                                    tatTGTATTCCCATTGATCGTAGCCAGTGAGTTGACCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCAGAAAAATAATGCAGGCCATCAACTTTGCCATa            <  2:1135876/139‑1 (MQ=255)

                                                                                                                            tCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAg                                                                                    >  2:1341143/1‑59 (MQ=255)

                                                                                                                            tCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAg                                                                                    >  2:132788/1‑59 (MQ=255)

                                                                                                                            tCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAg                                                                                    <  1:1341143/59‑1 (MQ=255)

                                                                                                                            tCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAg                                                                                    <  1:132788/59‑1 (MQ=255)

                                                                                                                            tCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCAg                                           <  2:861672/100‑1 (MQ=255)

                                                                                                                            tCCCATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTAGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCAg                                           >  1:861672/1‑100 (MQ=255)

                                                                                                                              ccATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCGTAGCTCTGGTCGCCATCTTTCGCTGAATTATCAGAAAAATAATGCAGGCCATCaa                      >  2:995999/1‑119 (MQ=255)

                                                                                                                              ccATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCAGAAAAATAATGCAGGCCATCaa                      <  1:995999/119‑1 (MQ=255)

                                                                                                                              ccATTGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCAGAAAAATAATGCAGGCCATCAACTTTGCCATACAGATCTAAt  >  1:1339311/1‑139 (MQ=255)

                                                                                                                                 ttGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATTTTTCGCTGAATTATCAg                                           <  1:1074304/95‑1 (MQ=255)

                                                                                                                                 ttGATCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCAg                                           >  2:1074304/1‑95 (MQ=255)

CATTACGCCATAATTACGTCCGTAATCGAAAGAACCGTAATCTGCAAATTTCAGCCCGGCAAATGCCAGACGGGTCCATGACTGGTTTTTTGAAGATTCAGTGTTGTTTGCCTGAATATTGTATTCCCATTGACCGTAGCCAGTGAGTTGATCGTTAATTTGGGTTTCGCCTTTAAAACCCAGACGCGCATAGCTCTGGTCGCCATCTTTCGCTGAATTATCAGAAAAATAATGCAGGCCATCAACTTTGCCATACAGATCTAAT  >  NC_000913/1436537‑1436801

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `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