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 I1 R1	757	76.1	3598070	93.4%	3360597	108.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,818,550	(C)_7→8	intergenic (‑50/+55)	chbF ← / ← chbR	phospho‑chitobiase, general 6‑phospho‑beta‑glucosidase activity/repressor of chb operon for N,N'‑diacetylchitobiose utilization

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,818,543	1	.	C	100.0%	202.1 / NA	57	intergenic (‑43/+62)	chbF/chbR	phospho‑chitobiase, general 6‑phospho‑beta‑glucosidase activity/repressor of chb operon for N,N'‑diacetylchitobiose utilization
Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (32/25); total (32/25)

TCGTGATAACGCTTAATAAATCCTTCCAGTAACTCCGGGGTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGTTAATTTCTTAAACGTTT  >  NC_000913/1818412‑1818675

tCGTGATAACGCTTAATAAATCCTTCCAGTAACTCCGGGGTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑ccccccc                                                                                                                               <  1:1489409/139‑1 (MQ=255)

   tGATAACGCTTAATAAATCCTTCCAGTAACTCCGGGGTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑ccccccccgg                                                                                                                            <  2:1746546/139‑4 (MQ=255)

    gATAACGCTTAATAAATCCTTCCAGTAACTCCGGGGTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑ccccccccgga                                                                                                                           <  1:261121/139‑5 (MQ=255)

                taaATCCTTCCAGTAACTCCGGGGTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATcc                                                                                                                <  2:852107/139‑1 (MQ=255)

                        tCCAGTAACTCCGGGGTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCaa                                                                                                           >  2:284626/1‑136 (MQ=255)

                        tCCAGTAACTCCGGGGTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCaa                                                                                                           <  1:284626/136‑1 (MQ=255)

                        tCCAGTAACTCCGGGGTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAg                                                                                                        >  2:833568/1‑139 (MQ=255)

                           aGTAACTCCGGGGTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGAc                                                                                                     <  2:953612/139‑1 (MQ=255)

                              aaCTCCGGGGTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGa                                                                                                  <  1:833568/139‑1 (MQ=255)

                               aCTCCGGGGTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGat                                                                                                 >  1:582821/1‑139 (MQ=255)

                                 tCCGGGGTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGatat                                                                                               >  2:1508161/1‑139 (MQ=255)

                                     gggTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCaa                                                                                                           <  1:1050533/123‑1 (MQ=255)

                                     gggTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCaa                                                                                                           >  2:1050533/1‑123 (MQ=255)

                                     gggTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAg                                                                                                        >  2:1338912/1‑126 (MQ=255)

                                     gggTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAg                                                                                                        <  1:1338912/126‑1 (MQ=255)

                                          taGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGt                                                                                      <  2:582821/139‑1 (MQ=255)

                                           aGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCaa                                                                                                           <  1:1512613/117‑1 (MQ=255)

                                           aGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCaa                                                                                                           >  2:1512613/1‑117 (MQ=255)

                                           aGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATAtgt                                                                                             <  1:266977/131‑1 (MQ=255)

                                           aGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATAtgt                                                                                             >  2:266977/1‑131 (MQ=255)

                                           aGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTc                                                                                     <  1:1450281/139‑1 (MQ=255)

                                               gctCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGa                                                                                                      >  2:1487075/1‑118 (MQ=255)

                                               gctCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGa                                                                                                      <  1:1487075/118‑1 (MQ=255)

                                                ctCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑ccccccc                                                                                                                               <  2:98331/91‑1 (MQ=255)

                                                ctCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑ccccccc                                                                                                                               >  1:98331/1‑91 (MQ=255)

                                                  cccGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAg                                                                                                        >  1:258618/1‑113 (MQ=255)

                                                  cccGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAg                                                                                                        <  2:258618/113‑1 (MQ=255)

                                                  cccGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGtata                                                                              >  2:552970/1‑139 (MQ=255)

                                                  cccGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGtata                                                                              <  1:1508161/139‑1 (MQ=255)

                                                  cccGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑ccccccc                                                                                                                               >  1:1136900/1‑89 (MQ=255)

                                                  cccGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑ccccccc                                                                                                                               <  2:1136900/89‑1 (MQ=255)

                                                     gCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACg                                                                           >  2:87391/1‑139 (MQ=255)

                                                          caATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑ccccccccg                                                                                                                             >  2:404851/1‑81 (MQ=255)

                                                          caATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑ccccccccg                                                                                                                             <  1:404851/83‑3 (MQ=255)

                                                                  acgacTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑ccc                                                                                                                                   <  1:493547/69‑1 (MQ=255)

                                                                  acgacTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑ccc                                                                                                                                   >  2:493547/1‑69 (MQ=255)

                                                                    gacTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTg                                                                                       >  2:758253/1‑112 (MQ=255)

                                                                    gacTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTg                                                                                       <  1:758253/112‑1 (MQ=255)

                                                                       ttttAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCa                                                         >  1:1611525/1‑139 (MQ=255)

                                                                                 tGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCt                                               >  1:1214255/1‑139 (MQ=255)

                                                                                       aTAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTAc                                                                     >  2:1376440/1‑111 (MQ=255)

                                                                                       aTAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTAc                                                                     <  1:1376440/111‑1 (MQ=255)

                                                                                             tctcCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑ccccccc                                                                                                                               <  1:341023/46‑1 (MQ=255)

                                                                                             tctcCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑ccccccc                                                                                                                               >  2:341023/1‑46 (MQ=255)

                                                                                              ctcCCTTCAGTACAGAATACTGATATCTGTCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCtt                                  <  2:1214255/139‑1 (MQ=255)

                                                                                              ctcCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCtt                                  <  2:1611525/139‑1 (MQ=255)

                                                                                               tcCCTTCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTa                                 >  2:276849/1‑139 (MQ=255)

                                                                                                   ttCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCa                                                                                    >  1:700836/1‑84 (MQ=255)

                                                                                                   ttCAGTACAGAATACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCa                                                                                    <  2:700836/84‑1 (MQ=255)

                                                                                                             aaTACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCaa                                                                                                           <  1:1464582/51‑1 (MQ=255)

                                                                                                             aaTACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCaa                                                                                                           >  2:1464582/1‑51 (MQ=255)

                                                                                                             aaTACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATTTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTATTAGGCGTAAAGGACGt                   >  2:1734334/1‑139 (MQ=255)

                                                                                                             aaTACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGt                   >  1:710463/1‑139 (MQ=255)

                                                                                                             aaTACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGt                   >  1:42719/1‑139 (MQ=255)

                                                                                                               tACTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGTTa                 <  2:243620/139‑1 (MQ=255)

                                                                                                                aCTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGTTaa                >  1:598851/1‑139 (MQ=255)

                                                                                                                 cTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGAt                                                                 >  1:457356/1‑89 (MQ=255)

                                                                                                                 cTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGAt                                                                 <  2:457356/89‑1 (MQ=255)

                                                                                                                 cTGATATCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGTTAAt               <  1:87391/139‑1 (MQ=255)

                                                                                                                    atatCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCaa                                                                                                           <  1:1683079/44‑1 (MQ=255)

                                                                                                                    atatCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCaa                                                                                                           >  2:1683079/1‑44 (MQ=255)

                                                                                                                       tCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGa                                                                                                      <  2:867972/46‑1 (MQ=255)

                                                                                                                       tCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGa                                                                                                      >  1:867972/1‑46 (MQ=255)

                                                                                                                       tCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGaa                                                                                          >  1:1064468/1‑58 (MQ=255)

                                                                                                                       tCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGaa                                                                                          <  2:1064468/58‑1 (MQ=255)

                                                                                                                       tCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGTTAATTTCTTa         >  2:722099/1‑139 (MQ=255)

                                                                                                                       tCTGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGTTAATTTCTTa         >  2:1536052/1‑139 (MQ=255)

                                                                                                                         tGGCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGTTAATTTCTTaaa       >  2:1057862/1‑139 (MQ=255)

                                                                                                                           gCATATCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGTTAATTTCTTAAACg     >  1:24492/1‑139 (MQ=255)

                                                                                                                              tatCTGCCCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGTTAATTTCTTAAACGttt  >  1:417094/1‑139 (MQ=255)

TCGTGATAACGCTTAATAAATCCTTCCAGTAACTCCGGGGTATAGCTGCTCCCGCCACCAATAGTGACGACTTTTAATTTCTGGCTCATAATTTCTCCCTTCAGTACAGAATACTGATATCTGGCATATCTG‑CCCCCCCGGACATAAATAATCCAGCAACAGGACAGATATGTGAATTGTCAGGTATAACGACTTACTGATTAAATTCAGTCAATTTCTTACGATAGCTCTTAGGCGTAAAGGACGTTAATTTCTTAAACGTTT  >  NC_000913/1818412‑1818675

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A