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	169	80.7	2736954	99.0%	2709584	138.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,303,697	Δ1 bp	coding (92/165 nt)	yojO →	uncharacterized protein YojO

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,303,696	0	G	.	100.0%	103.4 / NA	25	coding (91/165 nt)	yojO	uncharacterized protein YojO
Reads supporting (aligned to +/- strand): ref base G (0/0); new base . (3/22); total (3/22)

AATAAGCCATTTTTATAGCCGCTAAGATATTAAAGGATGTGTCAAAGATGCATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAATGGTTATAAATATATTTATATAGCGATTGATTCACCAGAGATATTTCTGCTGGTTTGCTCTCTCATTAGAATTTAACACTAAAAGAGCAGGTAAAATTGTCTGAATGTTCTTTAAGTTATTCATAAAGCAAA  >  NC_000913/2303559‑2303826

aataaGCCATTTTTATAGCCGCTAAGATATTAAAGGATGTGTCAAAGATGCATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAATgtt                                                                                                                                  <  1:324814/140‑3 (MQ=255)

   aaGCCATTTTTATAGCCGCTAAGATATTAAAGGATGTGTCAAAGATGCATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTtata                                                                                                                              <  2:597870/140‑1 (MQ=255)

   aaGCCATTTTTATAGCCGCTAAGATATTAAAGGATGTGTCAAAGATGCATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTtata                                                                                                                              <  1:375247/140‑1 (MQ=255)

   aaGCCATTTTTATAGCCGCTAAGATATTAAAGGATGTGTCAAAGATGCATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTtata                                                                                                                              <  1:565413/140‑1 (MQ=255)

   aaGCCATTTTTATAGCCGCTAAGATATTAAAGGATGTGTCAAAGATGCATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTtata                                                                                                                              <  1:597725/140‑1 (MQ=255)

    aGCCATTTTTATAGCCGCTAAGATATTAAAGGATGTGTCAAAGATGCATA‑CCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTTATaaa                                                                                                                            <  1:766062/140‑1 (MQ=255)

     gCCATTTTTATAGCCGCTAAGATATTAAAGGATGTGTCAAAGATGCATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTTATaaa                                                                                                                            <  1:201095/140‑1 (MQ=255)

     gCCATTTTTATAGCCGCTAAGATATTAAAGGATGTGTCAAAGATGCATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTTATaaa                                                                                                                            <  1:407573/140‑1 (MQ=255)

       cATTTTTATAGCCGCTAAGATATTAAAGGATGTGTCAAAGATGCATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTTATAAata                                                                                                                          <  2:632675/140‑1 (MQ=255)

                 gCCGCTAAGATATTAAAGGATGTGTCAAAGATGCATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTTATAAATATATTtatata                                                                                                                >  2:89484/1‑140 (MQ=255)

                 gCCGCTAAGATATTAAAGGATGTGTCAAAGATGCATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTTATAAATATATTtatata                                                                                                                <  1:89484/140‑1 (MQ=255)

                    gCTAAGATATTAAAGGATGTGTCAAAGATGCATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAGAAGC‑GGGCAAAACGCGCGGTTTTTCTCATTTTTAAT‑GTTTTTAATATATTtaaaaattg                                                                                                             >  2:713303/1‑133 (MQ=255)

                         gATATTAAAGGATGTGTCAAAGATGCATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTTATAAATATATTTATATAGCgattga                                                                                                        <  2:1247938/140‑1 (MQ=255)

                          atatTAAAGGATGTGTCAAAGATGCATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTTATAAATATATTTATATAGCgattgat                                                                                                       <  2:1320098/140‑1 (MQ=255)

                                    aTGTGTCAAAGATGCATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGCGGGGAAGGTG‑GGGAAAAAAGGGGTTTT‑TTTACATTTTAAAT‑ATTATAAAAATATTTTTATATAGATTTATTTTCCAaaga                                                                                             >  2:1235089/1‑140 (MQ=255)

                                       tgtCAAAGATGCATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAAACGG‑GGGGAAAAAAGGGTTTTGTTCACCTTTTTAAT‑ATTATAAATATATTTTTATTATGATTGATTTACCAAAGaaat                                                                                          >  2:799022/1‑140 (MQ=255)

                                        gtCAAAGATGCATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGGAAAGG‑GGGAAAAAAAGGCTTTTTCTCACACTTCTAA‑AATTTTAAAAAAATTTATATATCGATTTATTTACCACAGAAAtt                                                                                         >  2:6655/1‑140 (MQ=255)

                                             aGATGCATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGGAGCGG‑GGGGAAAAAAGGCGTTTTTTCTCATTTTAAAT‑ATTATAAAAATATTTATATTATGATTTATTTACCAAAGATAttttttt                                                                                    >  2:1066291/1‑136 (MQ=255)

                                                  cATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGGAGGGTGGGAAAAAAAGGGCTTTT‑TTCCCATTTTCAAAGTTTTTAAA‑ATAAATTTATAAAGATTTATTTACCAAAGATATTTttgtctctt                                                                               >  2:87280/1‑134 (MQ=255)

                                                   aTACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGGAGGGG‑GGGGAAAAAAAGCGTTTTCTTTCATTTTTAA‑AATTATAAAAATATTTATATATAGAATGATTTTCCACAGAAATTTTTTCTTGttt                                                                              >  2:977013/1‑140 (MQ=255)

                                                     aCCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTTATAAATATATTTATATAGCGATTGATTCACCAGAGATATTTCTGCTGGTTTGc                                                                            <  1:6655/140‑1 (MQ=255)

                                                        ccGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTTATAAATATATTTATATAGCGATTGATTCACCAGAGATATTTCTGCTGGTTTGctct                                                                         <  1:1228385/140‑1 (MQ=255)

                                                          gATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTTATAAATATATTTATATAGCGATTGATTCACCAGAGATATTTCTGCTGGTTTGctctct                                                                       <  1:4211/140‑1 (MQ=255)

                                                                       ccTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTTATAAATATATTTATATAGCGATTGATTCACCAGAGATATTTCTGCTGGTTTGCTCTCTCATTAGAATTTaa                                                          <  1:803366/140‑1 (MQ=255)

                                                                        cTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTTATAAATATATTTATATAGCGATTGATTCACCAGAGATATTTCTGCTGGTTTGCTCTCTCATTAGAATTTAac                                                         <  2:111718/140‑1 (MQ=255)

                                                                                ggATCAAAAGAGTGGC‑GGGGAGCGG‑GGCAAAAAAAGGCTTTTGCTCACATTTCAAAT‑ATTATAAAAAAAATTTTATAAAGATTGATTTACCCGAGATATTTTTTTTTGTTTGTTTTCTCTTTATAATTTtaaaataaaaa                                                 >  2:851454/1‑139 (MQ=255)

                                                                                 gATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTTATAAATATATTTATATAGCGATTGATTCACCAGAGATATTTCTGCTGGTTTGCTCTCTCATTAGAATTTAACACTAAAaga                                                <  1:977013/140‑1 (MQ=255)

                                                                                           gTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTTATAAATATATTTATATAGCGATTGATTCACCAGAGATATTTCTGCTGGTTTGCTCTCTCATTAGAATTTAACACTAAAAGAGCAGGTaaaa                                      <  1:632113/140‑1 (MQ=255)

                                                                                                      gCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTTATAAATATATTTATATAGCGATTGATTCACCAGAGATATTTCCGCTGGTTTGCTCTCTCATTAGAATTTAACACTAAAAGAGCAGGTAAAATTGTCTGAAt                            <  1:353100/140‑1 (MQ=255)

                                                                                                         t‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTTATAAATATATTTATATAGCGATTGATTCACCAGAGATATTTCTGCTGGTTTGCTCTCTCATTAGAATTTAACACTAAAAGAGCAGGTAAAATTGTCTGaa                             <  2:1092128/136‑1 (MQ=255)

                                                                                                         t‑GGCAAAAACGGGCTTTTGCTCACATTTCAAAT‑GTTATAAATATATTTATATAGCGATTGATTCACCAGAGATATTTCTGCTGGTTTGCTCTCTCATTAGAATTTAACACTAAAAGAGCAGGTAAAATTGTCTGaa                             >  1:1092128/1‑136 (MQ=255)

                                                                                                              aaaaaCGGGCTTTTGCTCACATTTCAAAT‑GTTATAAATATATTTATATAGCGATTGATTCACCAGAGATATTTCTGCTGGTTTGCTCTCTCATTAGAATTTAACACTAAAAGAGCAGGTAAAATTGTCTGAATGTTCttt                     <  1:1235089/140‑1 (MQ=255)

                                                                                                                                acaTTTCAAAT‑GTTATAAATATATTTATATAGCGATTGATTCACCAGAGATATTTCTGCTGGTTTGCTCTCTCATTAGAATTTAACACTAAAAGAGCAGATAAAATTGTCTGAATGTTCTTTAAGTTATTCATAAAGCaa   <  1:1309321/140‑1 (MQ=255)

                                                                                                                                 caTTTCAAAT‑GTTATAAATATATTTATATAGCGATTGATTCACCAGAGATATTTCTGCTGGTTTGCTCTCTCATTAGAATTTAACACTAAAAGAGCAGGTAAAATTGTCTGAATGTTCTTTAAGTTATTCATAAAGCaaa  >  2:160740/1‑140 (MQ=255)

AATAAGCCATTTTTATAGCCGCTAAGATATTAAAGGATGTGTCAAAGATGCATACCCCGATCGGGGTAAAACCTGTAGCAGGATCAAAAGAGTGGC‑GGGAAGCGT‑GGCAAAAACGGGCTTTTGCTCACATTTCAAATGGTTATAAATATATTTATATAGCGATTGATTCACCAGAGATATTTCTGCTGGTTTGCTCTCTCATTAGAATTTAACACTAAAAGAGCAGGTAAAATTGTCTGAATGTTCTTTAAGTTATTCATAAAGCAAA  >  NC_000913/2303559‑2303826

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A