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
A1 F28 I1 R1	163	52.9	1786516	99.3%	1774010	139.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,517,532	C→T	F48F (TTC→TTT)	ortT →	orphan toxin OrtT

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,517,532	0	C	T	100.0%	178.0 / NA	51	F48F (TTC→TTT)	ortT	orphan toxin OrtT
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (25/26); total (25/26)

AACACATGCTTGTTTTTTATGCGGTTATGGCAGCAATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTCCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCAGACTTATATCATTTGGATGAATCGATAAATTTCACAAGTGGCTAAGGAGAAAGTATGTCGCATCTGGATG  >  NC_000913/1517402‑1517663

aaCACATGCTTGTTTTTTATGCGGTTATGGCAGCAATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGgcg                                                                                                                            <  2:493055/140‑1 (MQ=255)

      tGCTTGTTTTTTATGCGGTTATGGCAGCAATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGGAACATGGCCGATGAGTTTTCCGGTGGCGCtgttg                                                                                                                      >  1:447068/1‑140 (MQ=255)

       gCTTGTTTTTTATGCGGTTATGGCAGCAATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCtgttgt                                                                                                                     >  1:148594/1‑140 (MQ=255)

       gCTTGTTTTTTATGCGGTTATGGCAGCAATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCtgttgt                                                                                                                     >  1:452744/1‑140 (MQ=255)

        cTTGTTTTTTATGCGGTTATGGCAGCAATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTgg                                                                                                                              >  1:80814/1‑130 (MQ=255)

        cTTGTTTTTTATGCGGTTATGGCAGCAATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTgg                                                                                                                              <  2:80814/130‑1 (MQ=255)

        cTTGTTTTTTATGCGGTTATGGCAGCAATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTgttgtt                                                                                                                    >  1:126827/1‑140 (MQ=255)

        cTTGTTTTTTATGCGGTTATGGCAGCAATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTgttgtt                                                                                                                    >  1:422576/1‑140 (MQ=255)

             tttttCTGCGGTTATGGCAGCAATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTATGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCAc                                                                                                               <  2:528483/140‑1 (MQ=255)

             tttttATGCGGTTATGGCAGCAATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCAc                                                                                                               <  1:852000/140‑1 (MQ=255)

                   tGCGGTTATGGCAGCAATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGtttt                                                                                                         <  2:747439/140‑1 (MQ=255)

                   tGCGGTTATGGCAGCAATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCAT‑‑GTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTaa                                                                                                       <  1:825332/140‑1 (MQ=255)

                   tGCGGTTATGCCAGCAATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGtttt                                                                                                         <  2:550150/140‑1 (MQ=255)

                      ggTTATGGCAGCAATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTaaa                                                                                                      <  2:267512/140‑1 (MQ=255)

                          aTGGCAGCAATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCtt                                                                                                  <  1:528029/140‑1 (MQ=255)

                                 caATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATc                                                                                                    <  1:363566/131‑1 (MQ=255)

                                 caATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATc                                                                                                    >  2:363566/1‑131 (MQ=255)

                                 caATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACt                                                                                           >  2:815148/1‑140 (MQ=255)

                                  aaTCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTg                                                                                          >  2:371386/1‑140 (MQ=255)

                                  aaTCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTg                                                                                          >  1:553074/1‑140 (MQ=255)

                                  aaTCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTg                                                                                          >  1:529221/1‑140 (MQ=255)

                                           tCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACgg                                                                                 <  1:156600/140‑1 (MQ=255)

                                            cTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGc                                                                                <  2:553074/140‑1 (MQ=255)

                                            cTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGc                                                                                <  1:815148/140‑1 (MQ=255)

                                              tATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGGAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGcac                                                                              <  2:447068/140‑1 (MQ=255)

                                               aTCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGcacc                                                                             >  2:166969/1‑140 (MQ=255)

                                                  aCCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACg                                                                          <  1:371386/140‑1 (MQ=255)

                                                  aCCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACg                                                                          <  2:126827/140‑1 (MQ=255)

                                                    cTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCa                                                                        <  1:404831/140‑1 (MQ=255)

                                                    cTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCa                                                                        >  1:297247/1‑140 (MQ=255)

                                                      ggTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCAGa                                                                      >  2:319069/1‑140 (MQ=255)

                                                       gTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCAGAc                                                                     <  1:134361/140‑1 (MQ=255)

                                                            tttctCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCAGACTtata                                                                >  1:885107/1‑140 (MQ=255)

                                                            tttctCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCAGACTtata                                                                >  2:4881/1‑140 (MQ=255)

                                                              tctcACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCAGACTTATATc                                                              >  1:36385/1‑140 (MQ=255)

                                                              tctcACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGCTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGc                                                                         <  2:330905/129‑1 (MQ=255)

                                                              tctcACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGCTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGc                                                                         >  1:330905/1‑129 (MQ=255)

                                                                 cACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCAGACTTATATCAtt                                                           <  2:452744/140‑1 (MQ=255)

                                                                 cACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACACAGACTTATATCAtt                                                           >  1:375428/1‑140 (MQ=255)

                                                                            aCGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACACAGACTTATATCATTTGGATGAATCg                                                <  2:375428/140‑1 (MQ=255)

                                                                               cATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCAGACTTATATCATTTGGATGAATCGATa                                             <  2:529221/140‑1 (MQ=255)

                                                                                   cGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCAGACTTATATCATTTGGATGAATCGATAAAtt                                         <  2:885107/140‑1 (MQ=255)

                                                                                        cTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCAGACTTATATCATTTGGATGAATCGATAAATTTcaca                                    >  1:360872/1‑140 (MQ=255)

                                                                                          tAAGCGCCTTTCTGGTGGGGGAAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCAGACTTATATCATTTGGATGAATCGATAAATTTCACAAg                                  >  2:634163/1‑140 (MQ=255)

                                                                                               gcCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCAGACTTATATCATTTGGATGAATCGATAAATTTCACAAGTGGCt                             <  2:36385/140‑1 (MQ=255)

                                                                                                   ttCTGGTGGGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCAGACTTATATCATTTGGATGAATCGATAAATTTCACAAGTGGCTAAgg                         >  1:496354/1‑140 (MQ=255)

                                                                                                        gtggGGGCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCAGACTTATATCATTTGGATGAATCGATAAATTTCACAAGTGGCTAAGGAGaaa                    <  2:416499/140‑1 (MQ=255)

                                                                                                             ggCAACATGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCAGACTTATATCATTTGGATGAATCGATAAATTTCACAAGTGGCTAAGGAGAAAGTATg               >  1:840576/1‑140 (MQ=255)

                                                                                                                    tGGCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCAGACTTATATCATTTGGATGAATCGATAAATTTCACAAGTGGCTAAGGAGAAAGTATGTCGCATc        <  1:164997/140‑1 (MQ=255)

                                                                                                                     ggCCGATGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCAGACTTATATCATTTGGATGAATCGATAAATTTCACAAGTGGCTAAGGAGAAAGTATGTCGCATCt       >  1:179040/1‑140 (MQ=255)

                                                                                                                          aTGAGTTTTCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCAGACTTATATCATTTGGATGAATCGATAAATTTCACAAGTGGCTAAGGAGAAAGTATGTCGCATCTGGATg  >  1:291771/1‑140 (MQ=255)

AACACATGCTTGTTTTTTATGCGGTTATGGCAGCAATCGCATTTCTTATCACCTGGTTTCTTTCTCACGATAAGAAACGCATCCGTTTCTTAAGCGCCTTTCTGGTGGGGGCAACATGGCCGATGAGTTTCCCGGTGGCGCTGTTGTTTTCACTGTTTTAAATCTTACTCACTGGCTTGACGGCACCACGCAGACTTATATCATTTGGATGAATCGATAAATTTCACAAGTGGCTAAGGAGAAAGTATGTCGCATCTGGATG  >  NC_000913/1517402‑1517663

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