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
A14 F1 I2 R1	774	49.2	2112398	96.9%	2046913	118.5

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%	93.8 / NA	33	289 (TAG→TAA)	insF1	IS3 transposase B
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (17/16); total (17/16)

GGGCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTATTACCGGTTCGCTAC  >  NC_000913/567898‑568129

gggCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAAc                                                                                               >  1:908795/1‑139 (MQ=11)

            ttAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCa                                                                                   >  2:475548/1‑139 (MQ=255)

                   tatCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCg                                                                            >  1:377082/1‑139 (MQ=255)

                     tCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGc                                                                          >  2:318927/1‑139 (MQ=255)

                     tCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGc                                                                          >  2:222481/1‑139 (MQ=255)

                     tCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGc                                                                          >  1:978327/1‑139 (MQ=255)

                        aaTGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCt                                                                               <  2:998105/131‑1 (MQ=255)

                        aaTGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCt                                                                               >  1:998105/1‑131 (MQ=255)

                             gATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAAc                                                                                               >  2:446764/1‑110 (MQ=11)

                             gATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAAc                                                                                               <  1:446764/110‑1 (MQ=11)

                                 aCAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGcgcg                                                              <  1:30390/139‑1 (MQ=255)

                                     tCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCa                                                          >  1:894193/1‑139 (MQ=255)

                                       ggTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCa                                                                                             <  1:145070/102‑1 (MQ=17)

                                       ggTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCa                                                                                             >  2:145070/1‑102 (MQ=17)

                                        gTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGa                                                       <  2:19704/139‑1 (MQ=255)

                                            cggcggcACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATcc                                                   >  2:632542/1‑139 (MQ=255)

                                               cggcACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAAc                                                                                               <  1:320346/92‑1 (MQ=14)

                                               cggcACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAAc                                                                                               >  2:320346/1‑92 (MQ=14)

                                                   acaGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGGGCGGGCAGGAATCCTGGTCGt                                            <  1:475548/139‑1 (MQ=255)

                                                    caGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGtt                                           <  2:936326/139‑1 (MQ=255)

                                                          gtgtGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGt                                     <  2:387980/139‑1 (MQ=255)

                                                           tgtgGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTa                                    <  2:806186/139‑1 (MQ=255)

                                                               gcggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATTAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCAGGTCGTTGATGGTAAGGt                                >  1:709069/1‑139 (MQ=255)

                                                                 ggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCt                              >  1:435755/1‑139 (MQ=255)

                                                                 ggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCt                              >  2:504601/1‑139 (MQ=255)

                                                                     tCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCg                          <  2:231869/139‑1 (MQ=255)

                                                                       aGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGaa                        <  2:377082/139‑1 (MQ=255)

                                                                        gTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAAc                       <  2:259740/139‑1 (MQ=255)

                                                                                   tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGcgcg                                                              >  2:142424/1‑89 (MQ=255)

                                                                                   tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGcgcg                                                              <  1:142424/89‑1 (MQ=255)

                                                                                             aGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTATTACCGGTTCGCTAc  <  2:978327/139‑1 (MQ=255)

                                                                                                    cGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGcgcg                                                              <  2:673666/72‑1 (MQ=255)

                                                                                                    cGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGcgcg                                                              >  1:673666/1‑72 (MQ=255)

GGGCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCAACCAGCATAAATCAGGCTGCGGCTAAAATGGCGCGGGCAGGAATCCTGGTCGTTGATGGTAAGGTCTGGCGAACGGTGTATTACCGGTTCGCTAC  >  NC_000913/567898‑568129

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