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
A4 F1 I1 R1	765	39.6	1867486	94.4%	1762906	108.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,021,501	G→A	138 (TAG→TAA)	fliN →	flagellar motor switching and energizing component

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,021,501	0	G	A	100.0%	162.5 / NA	51	138 (TAG→TAA)	fliN	flagellar motor switching and energizing component
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (26/25); total (26/25)

CGGGCGAACCACTGGATATTCTGATCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAGTGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTAAAA  >  NC_000913/2021365‑2021623

cgggcgAACCACTGGATATTCTGATCAACGGCTAGTTAATCGCCCAGGGCGAAGTGGTGGTAGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAAtg                                                                                                                          >  2:601812/1‑139 (MQ=255)

     gAACCACTGGATATTCTGATCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGaa                                                                                                                     >  2:205194/1‑139 (MQ=255)

                      gATCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGc                                                                                                    >  1:911858/1‑139 (MQ=255)

                        tCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGGCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAAt                                                                                                                    >  2:233690/1‑121 (MQ=255)

                        tCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGGCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAAt                                                                                                                    <  1:233690/121‑1 (MQ=255)

                        tCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACtgtgtaa                                                                                                  >  1:243377/1‑136 (MQ=255)

                              gTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTcc                                                                                            >  2:57575/1‑139 (MQ=255)

                                       tCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGtt                                                                                   >  1:136002/1‑139 (MQ=255)

                                          cccAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACg                                                                                                             >  2:712130/1‑110 (MQ=255)

                                          cccAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACg                                                                                                             <  1:712130/110‑1 (MQ=255)

                                              gggCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTctgctg                                                                            <  2:911858/139‑1 (MQ=255)

                                                gCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGTAATCTTCCGCGCCGGTTTCTGCTgcg                                                                          <  2:243377/139‑1 (MQ=255)

                                                       ggtggtCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCActgc                                                                   <  1:205194/139‑1 (MQ=255)

                                                           gtCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAAt                                                                                                                    >  1:331023/1‑86 (MQ=255)

                                                           gtCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAAt                                                                                                                    <  2:331023/86‑1 (MQ=255)

                                                           gtCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCa                                                               <  1:712883/139‑1 (MQ=255)

                                                                              gCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATc                                            <  1:317323/139‑1 (MQ=255)

                                                                                 tGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACg                                                                                                             >  1:436119/1‑71 (MQ=255)

                                                                                 tGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACg                                                                                                             <  2:436119/71‑1 (MQ=255)

                                                                                 tGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCa                                                  >  2:878851/1‑130 (MQ=255)

                                                                                 tGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCa                                                  <  1:878851/130‑1 (MQ=255)

                                                                                 tGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGcc                                         >  1:692248/1‑139 (MQ=255)

                                                                                 tGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGcc                                         >  2:384903/1‑139 (MQ=255)

                                                                                   cGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAAtg                                                                                                                          >  2:420792/1‑56 (MQ=255)

                                                                                   cGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAAtg                                                                                                                          <  1:420792/56‑1 (MQ=255)

                                                                                         aCCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAAtgatga                                                                                                                      >  2:169280/1‑54 (MQ=255)

                                                                                         aCCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAAtgatga                                                                                                                      <  1:169280/54‑1 (MQ=255)

                                                                                         aCCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGc                                 >  1:122689/1‑139 (MQ=255)

                                                                                          ccGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGcc                                <  1:384903/139‑1 (MQ=255)

                                                                                             atatCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCatta                                     <  1:674913/131‑1 (MQ=255)

                                                                                             atatCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCatta                                     >  2:674913/1‑131 (MQ=255)

                                                                                                tCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGcc                                                                        >  1:294752/1‑93 (MQ=255)

                                                                                                tCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGcc                                                                        <  2:294752/93‑1 (MQ=255)

                                                                                                tCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATc                          >  1:803193/1‑139 (MQ=255)

                                                                                                     aCTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCgc                     >  2:214916/1‑139 (MQ=255)

                                                                                                      cTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCgct                    <  2:122689/139‑1 (MQ=255)

                                                                                                        ccGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATc                                            >  1:358202/1‑113 (MQ=255)

                                                                                                        ccGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATc                                            <  2:358202/113‑1 (MQ=255)

                                                                                                         cGTCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCNGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCgctgct                 >  1:784091/1‑139 (MQ=255)

                                                                                                           tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTa                                                                                                          >  2:165859/1‑48 (MQ=255)

                                                                                                           tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTa                                                                                                          <  2:340487/48‑1 (MQ=255)

                                                                                                           tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTa                                                                                                          <  1:165859/48‑1 (MQ=255)

                                                                                                           tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTa                                                                                                          >  1:340487/1‑48 (MQ=255)

                                                                                                           tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCActgctg                                                                 <  2:27222/89‑1 (MQ=255)

                                                                                                           tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCActgctg                                                                 >  1:27222/1‑89 (MQ=255)

                                                                                                           tCTGAGCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCtgctgc               >  2:626563/1‑139 (MQ=255)

                                                                                                                gCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCctggc          <  2:511303/139‑1 (MQ=255)

                                                                                                                gCGAATGCGCCGCCTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCctggc          <  2:803193/139‑1 (MQ=255)

                                                                                                                        gccgccTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTaaaa  <  2:136002/139‑1 (MQ=255)

                                                                                                                        gccgccTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTaaaa  <  1:575532/139‑1 (MQ=255)

                                                                                                                        gccgccTGAGCCGTTAATGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTaaaa  <  1:57575/139‑1 (MQ=255)

CGGGCGAACCACTGGATATTCTGATCAACGGTTATTTAATCGCCCAGGGCGAAGTGGTGGTCGTTGCCGATAAATATGGCGTGCGGATCACCGATATCATTACTCCGTCTGAGCGAATGCGCCGCCTGAGCCGTTAGTGATGAATAACCACGCTACTGTGCAATCTTCCGCGCCGGTTTCTGCTGCGCCACTGCTGCAGGTGAGCGGCGCACTCATCGCCATTATTGCCCTGATCCTCGCTGCTGCCTGGCTGGTAAAA  >  NC_000913/2021365‑2021623

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