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 I1 R1	770	51.4	2439994	93.8%	2288714	110.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	568,004	G→A	289 (TAG→TAA)	insF1 →	IS3 transposase B

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	568,004	0	G	A	100.0%	127.0 / NA	43	289 (TAG→TAA)	insF1	IS3 transposase B
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (20/23); total (20/23)

GGGCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTATTACCGGTTCGCTACC  >  NC_000913/567898‑568130

gggCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAAc                                                                                                <  2:787050/139‑1 (MQ=11)

 ggCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAAcc                                                                                               >  2:320548/1‑139 (MQ=14)

    aaCGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGc                                                                                            >  2:34529/1‑139 (MQ=17)

                ttATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCt                                                                                <  2:597738/139‑1 (MQ=255)

                                tACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGgcgc                                                                >  2:934001/1‑139 (MQ=255)

                                     tCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCa                                                           >  2:1144988/1‑139 (MQ=255)

                                     tCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCa                                                           <  2:722053/139‑1 (MQ=255)

                                        gTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCt                                                                                <  1:782262/115‑1 (MQ=255)

                                        gTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGa                                                        >  2:711504/1‑139 (MQ=255)

                                        gTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCAGAAATCAGGCt                                                                                >  2:782262/1‑115 (MQ=255)

                                          ggcggcggcACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAAt                                                      >  1:235653/1‑139 (MQ=255)

                                               cggcACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGc                                                                                            >  2:1200958/1‑96 (MQ=18)

                                               cggcACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGc                                                                                            <  1:1200958/96‑1 (MQ=21)

                                                     aGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCt                                                                                <  1:501581/102‑1 (MQ=255)

                                                     aGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCt                                                                                >  2:501581/1‑102 (MQ=255)

                                                            gtgGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTaa                                    >  1:961280/1‑139 (MQ=255)

                                                             tgGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAg                                   <  1:34529/139‑1 (MQ=255)

                                                               gcggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGt                                 >  1:765023/1‑139 (MQ=255)

                                                                cggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTc                                >  2:205744/1‑139 (MQ=255)

                                                                 ggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGt                                      >  1:318629/1‑132 (MQ=255)

                                                                 ggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGt                                      <  2:318629/132‑1 (MQ=255)

                                                                  gcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTg                              <  1:238879/139‑1 (MQ=255)

                                                                    cTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGc                            <  1:1144988/139‑1 (MQ=255)

                                                                       aGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGaa                         <  2:235653/139‑1 (MQ=255)

                                                                       aGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGaa                         <  2:961280/139‑1 (MQ=255)

                                                                       aGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGaa                         <  1:205744/139‑1 (MQ=255)

                                                                        gTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCTTAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAAc                        <  1:711504/139‑1 (MQ=255)

                                                                        gTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGACCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAAc                        <  1:200961/139‑1 (MQ=255)

                                                                                  aTTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCAAAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTATTAc              <  1:934001/139‑1 (MQ=255)

                                                                                   tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTgg                                                 >  1:1127963/1‑103 (MQ=255)

                                                                                   tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTgg                                                 <  2:1127963/103‑1 (MQ=255)

                                                                                   tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGt                                                <  2:314678/104‑1 (MQ=255)

                                                                                   tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGt                                                >  1:314678/1‑104 (MQ=255)

                                                                                   tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGt                                             >  2:36218/1‑107 (MQ=255)

                                                                                   tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGt                                             <  1:36218/107‑1 (MQ=255)

                                                                                   tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACgg                      <  2:102090/130‑1 (MQ=255)

                                                                                   tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACgg                      >  1:102090/1‑130 (MQ=255)

                                                                                   tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTATTAcc             <  2:726100/139‑1 (MQ=255)

                                                                                              gAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGgcg                                                                 >  2:57241/1‑76 (MQ=255)

                                                                                              gAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGgcg                                                                 <  1:57241/76‑1 (MQ=255)

                                                                                              gAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTATTACCGGTTCGCTAca  >  2:1015719/1‑138 (MQ=255)

                                                                                                      cTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGt                                                >  2:162756/1‑85 (MQ=255)

                                                                                                      cTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGt                                                <  1:162756/85‑1 (MQ=255)

GGGCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTATTACCGGTTCGCTACC  >  NC_000913/567898‑568130

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `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