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
A3 F28 I1 R1	161	50.8	1735388	98.6%	1711092	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,112,805	A→G	D648G (GAC→GGC)	opgH →	osmoregulated periplasmic glucans (OPGs) biosynthesis protein H

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,112,805	0	A	G	97.7%	145.2 / ‑4.2	44	D648G (GAC→GGC)	opgH	osmoregulated periplasmic glucans (OPGs) biosynthesis protein H
Reads supporting (aligned to +/- strand): ref base A (0/1); new base G (23/20); total (23/21)
Fisher's exact test for biased strand distribution p-value = 4.77e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.59e-01

TTACATTATCGTTGCTGCTGGAAGTGCTTTTTTCCGTGCTGCTGGCTCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGACTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTGGGATGGCGTGGCTGGATCTGCGTTTCCTGTTCTGGCTGGCACCGATTGTCTTCTCGTTGATC  >  NC_000913/1112670‑1112938

ttACATTATCGTTGCTGCTGGAAGTGCTTTTTTCCGTGCTGCTGGCTCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTcc                                                                                                                                   >  2:351189/1‑140 (MQ=255)

ttACATTATCGTTGCTGCTGGAAGTGCTTTTTTCCCTGCTGCTGGCTCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTcc                                                                                                                                   >  2:625011/1‑140 (MQ=255)

       aTCGTTGCTGCTGGAAGTGCTTTTTTCCGTGCTGCTGGCTCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCt                                                                                                                            <  1:351189/140‑1 (MQ=255)

          gTTGCTGCTGGAAGTGCTTTTTTCCGTGCTGCTGGCTCCGGTACACATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTggg                                                                                                                         >  1:641806/1‑140 (MQ=255)

           ttGCTGCTGGAAGTGCTTTTTTCCGTGCTGCTGGCTCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTcc                                                                                                                                   >  2:225798/1‑129 (MQ=255)

           ttGCTGCTGGAAGTGCTTTTTTCCGTGCTGCTGGCTCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTcc                                                                                                                                   <  1:225798/129‑1 (MQ=255)

           ttGCTGCTGGAAGTGCTTTTTTCCGTGCTGCTGGCTCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTgggg                                                                                                                        >  1:287090/1‑140 (MQ=255)

           ttGCTGCTGGAAGTGCTTTTTTCCGTGCTGCTGGCTCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTgggg                                                                                                                        >  1:345649/1‑140 (MQ=255)

           ttGCTGCTGGAAGTGCTTTTTTCCGTGCTGCTGGCTCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTgggg                                                                                                                        >  1:421388/1‑140 (MQ=255)

           ttGCTGCTGGAAGTGCTTTTTTCCGTGCTGCTGGCTCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGCGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTgggg                                                                                                                        >  1:6900/1‑140 (MQ=255)

             gctgctGGAAGTGCTTTTTTCCGTGCTGCTGGCTCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTg                                                                                                                      >  1:854375/1‑140 (MQ=255)

             gctgctGGAACTGCTTTTTTCCGTGCTGCTGGCTCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGACTCCACTTCCTGGGGTg                                                                                                                      >  2:451749/1‑140 (MQ=255)

                                  cGTGCTGCTGGCTCCGGTACACATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCt                                                                                                 <  2:641806/140‑1 (MQ=255)

                                        gctgGCTCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAgc                                                                                           <  2:854375/140‑1 (MQ=255)

                                        gctgGCTCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAgc                                                                                           <  1:7781/140‑1 (MQ=255)

                                         ctgGCTCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGTTGAAGCGTTCAAACGAcacagctcacagct                                                                                          >  2:533160/1‑140 (MQ=255)

                                         ctgGCTCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAgct                                                                                          >  2:185828/1‑140 (MQ=255)

                                          tgGCTCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAgctg                                                                                         <  2:345649/140‑1 (MQ=255)

                                          tgGCTCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGACTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAgctg                                                                                         <  1:451749/140‑1 (MQ=255)

                                              tCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGt                                                                                     <  1:390904/140‑1 (MQ=255)

                                                  gTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCTCTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTa                                                                                   <  2:263498/138‑1 (MQ=255)

                                                  gTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTa                                                                                   >  1:263498/1‑138 (MQ=255)

                                                   tACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAgctgct                                                                                       <  2:192153/133‑1 (MQ=255)

                                                   tACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAgctgct                                                                                       >  1:192153/1‑133 (MQ=255)

                                                      gCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTa                                                                             >  2:857377/1‑140 (MQ=255)

                                                           cTGTTCCATTCGGTCTTCGTTGTCAGCCCGTTCCTTTGCTGGGAAGTGGTGTGGAATTCCCCGCAGCGGGATGATGGCTCCCCTTCCTGGGGTGAAGGGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGtgtg                                                                        <  2:220052/140‑1 (MQ=255)

                                                           cTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGtgtg                                                                        <  1:533160/140‑1 (MQ=255)

                                                                ccATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCTGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTg                                                                   >  2:599329/1‑140 (MQ=255)

                                                                ccATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTg                                                                   >  2:643525/1‑140 (MQ=255)

                                                                    aCGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTgg                                                               >  1:7618/1‑140 (MQ=255)

                                                                     cGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTggg                                                              <  1:857377/140‑1 (MQ=255)

                                                                      ggTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTGGGa                                                             <  2:7618/140‑1 (MQ=255)

                                                                        tCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTGGGATg                                                           >  2:191689/1‑140 (MQ=255)

                                                                           tCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTGGGATGGCg                                                        >  1:496220/1‑140 (MQ=255)

                                                                                  cAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTGGGATGGCGTGGCTgg                                                 >  2:172533/1‑140 (MQ=255)

                                                                                        gTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTGGGATGGCGTGGCTGGATCTGc                                           >  1:737628/1‑140 (MQ=255)

                                                                                             ttGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTGGGATGGCGTGGCTGGATCTGCGTTTc                                      <  1:172533/140‑1 (MQ=255)

                                                                                             ttGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTGGGATGGCGTGGCTGGATCTGCGTTTc                                      <  2:737628/140‑1 (MQ=255)

                                                                                                  tGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTGGGATGGCGTGGCTGGATCTGCGTTTCCTGtt                                 <  1:185828/140‑1 (MQ=255)

                                                                                                    ggAAGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTGGGATGGCGTGGCTGGATCTGCGTTTCCTGTTct                               >  2:661227/1‑140 (MQ=255)

                                                                                                      aaGTGGTGTGGAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTGGGATGGCGTGGCTGGATCTGCGTTTCCTGTTctgg                             <  1:599329/140‑1 (MQ=255)

                                                                                                                gAATTCACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTGGGATGGCGTGGCTGGATCTGCGTTTCCTGTTCTGGCTGGCACCGa                   <  2:736928/140‑1 (MQ=255)

                                                                                                                     cACCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTCGGGATGGCGTGGCTGGATCTGCGTTTCCTGATCTGGCTGGCACCGATTGtc              <  1:625011/140‑1 (MQ=255)

                                                                                                                      aCCGCAGCGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTGGGATGGCGTGGCTGGATCTGCGTTTCCTGTTCTGGCTGGCACCGATTGtct             <  2:287090/140‑1 (MQ=255)

                                                                                                                             cGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTGGGATGGCGTGGCTGGATCTGCGTTTCCTGTTCTGGCTGGCACCGATTGTCTTCTCGtt      >  1:726068/1‑140 (MQ=255)

                                                                                                                             cGTGATGATGGCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTGGGATGGCGTGGCTGGATCTGCGTTTCCTGTTCTGGCTGGCACCGATTGTCTTCTCGtt      <  1:661227/140‑1 (MQ=255)

                                                                                                                               tgatgatggCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTGGGATGGCGTGGCTGGATCTGCGTTTCCTGTTCTGGCTGGCACCGATTGTCTTCTCGTTGa    <  2:726068/140‑1 (MQ=255)

                                                                                                                                 atgatggCTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTGGGATGGCGTGGCTGGATCTGCGTTTCCTGTTCTGGCTGGCACCGATTGTCTTCTCGTTGATc  <  2:496220/140‑1 (MQ=255)

TTACATTATCGTTGCTGCTGGAAGTGCTTTTTTCCGTGCTGCTGGCTCCGGTACGCATGCTGTTCCATACGGTCTTCGTTGTCAGCGCGTTCCTTGGCTGGGAAGTGGTGTGGAATTCACCGCAGCGTGATGATGACTCCACTTCCTGGGGTGAAGCGTTCAAACGCCACGGCTCACAGCTGCTGTTAGGGTTAGTGTGGGCTGTTGGGATGGCGTGGCTGGATCTGCGTTTCCTGTTCTGGCTGGCACCGATTGTCTTCTCGTTGATC  >  NC_000913/1112670‑1112938

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A