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
A27 F124 I1 R1	28	40.1	1601150	89.4%	1431428	142.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	802,778	G→T	V298L (GTG→TTG)	ybhI →	putative tricarboxylate transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	802,778	0	G	T	76.7%	33.6 / 9.2	31	V298L (GTG→TTG)	ybhI	putative tricarboxylate transporter
Reads supporting (aligned to +/- strand): ref base G (2/5); new base T (12/11); total (14/17)
Fisher's exact test for biased strand distribution p-value = 3.99e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.01e-01

TGGATAACAAAACCATCGCTAAAGCGGGCCTTGCCGAACTAGGACCGATGAAAATCCGCGAAAAAATGCTGCTCGGTGTCTTTGTGCTGGCGCTGCTGGGCTGGATTTTCAGTAAGTCTCTGGGGGTTGATGAATCCACCGTGGCAATCGTTGTTATGGCAACCATGCTGCTGCTGGGTATCGTTACCTGGGAAGACGTGGTTAAAAATAAAGGCGGCTGGAATACCTTAATCTGGTACGGCGGTATTATCGGCTTAAGCTCCTTATTATCGAAAG  >  NC_000913/802638‑802913

tGGATAACAAAACCATCGCTAAAGCGGGCCTCGCCGAACTAGGACCGATGAAAATCCGCGAAAAAATGCTGCTCGGTGTCTTTGTGCTGGCGCTGCTGGGCTGGATTTTCAGTAAGTCTCTGGGGGTTGATGAATCCACCTTg                                                                                                                                       <  1:304601/143‑1 (MQ=255)

 ggATAACAAAACCATCGCTAAAGCGGGCCTTGCCGCACTAGGACCGATGAAAATCCGCGAAAAAATGCTGCTCGGGGTCTTTGTGCTGGCGCTGCTGGGCTGGATTTTCAGTAAGTCTCTGGGGGTTGATGAATCCACCTTgg                                                                                                                                      >  1:93934/1‑143 (MQ=255)

    tAACAAAACCATCGCTAAAGCGGTACTTGCCGAACTAGGACCGATGAAACTCCGCGAAAAAATGCTGCTCGGTGGATTTGTGCTGGCGCTGCTGGGCTGGATTTTCAGTAAGTCGCTGGGGGTTGATGAATCCACCTTGGCaa                                                                                                                                   <  1:507716/143‑1 (MQ=255)

       cAAAACCATCGCTAAAGCGGGCCTTGCCGAACTAGGACCGATGAAAATCCGCGAAAAAATGCTGCTCGGAGTCTGTGTGCTGGCGCTGCTGGGCTGGATTGTCAGTAAGTCTCTGGGGGTTGATGAATCCACCTTGGCAATCg                                                                                                                                >  2:215418/1‑143 (MQ=255)

                       gCGGGCCTTGCCGAACTAGGACCGATGAAAATCCGCGAAAAAATGCTGCTCGGTGTCTTTGTGCTGGCGCTGCTGGGCTGGCTTTTCAGTAAGTCTCTGGGGGTTGGTGAGTCCCCCTTGGCAATCGTTGTTATGGCAAccct                                                                                                                >  1:519019/1‑141 (MQ=255)

                         gggCCTTGCCGAACTAGGACCGATGAGAATCCGCGAAAAAATGCTGCTCGGTGTCTTTGTGCTAGCGCTGCTGGGCTGGATTTTCAGTAAGTCTCTGGGGGTTGATGAATCCACCGTGGCAATCGTTGTTATGGCAACCAtgc                                                                                                              <  2:406272/143‑1 (MQ=255)

                               ttcccaaCTAGGAGCGATGAAAATCCGCGAACAAATGCTGCTCGGTGTCTTTGTGCTGGCGCTGCTGGGCTGGATTTTCAGTAAGTCTCTGGGGGTTGATGAATCCACCTTGGCAATCGTTGTTATGGCAACCAtgctgctgc                                                                                                        <  2:218219/138‑1 (MQ=255)

                                  cGACCTAGGGCCGATGAAACGCCGCCAAAAAATGCTGCTCGGTGTCGTTGTGGTGGCGCTGCTGGGCTGGATTTTCAGTAAGTCTCTGGGGGTTGATGAATCCACCGTGGCAATCGTTGTTATGGCAACCATGCTGCTGCTgg                                                                                                     <  2:306349/143‑1 (MQ=255)

                                  cGAACTAGGACCGATCAAATTCCGCGAAAATATGCTGCTCGGTGTCTTTGTGCTGGCGCTGCTGGGCTGGATTTTCAGTAAGTCTCTGGGGGTTGATGAATCCACCGTGGCAATCGTTGTTATGGCAACCATGCTGCTGCTgg                                                                                                     <  1:315190/143‑1 (MQ=255)

                                              gATGACAATCCGCGAAAAAGTGCTGCTCGGTGTCTTTGTGCTGGCGCTGCTGGGCTGGATTTTCAGTAAGTCTCTGGGGGTAGATGAATCCACCTTGGCAATCGTTGTTATGGCAACCATGCTGCTGCTGGGTATCGTTACCt                                                                                         <  2:330397/143‑1 (MQ=255)

                                              gATGAAAATCCGCGAAAAAATGCTGCTCGGTGTCTTTGTGCTGGCGCTGCTGGGCTGAATTTTCAGTAAGTCTCTGGGGGTTGATGAATCCACCTTGGCAATCGTTGTTATGGCAACCATGCTGCTGCTGGGTATCGTTACCt                                                                                         >  1:716375/1‑143 (MQ=255)

                                                   aaaTCCGCGAAAAAATGCTGCTCGGTGTCTTTGTGCTGGCGCTGCTGGGCTGGATTTTCAGTAAGTCTCTGGGGGTTGATGAATCAACCTTGGCAATCGTTGTTATGGCAACCATGCTGCTGGTGGGTATCGTTACCTGGGaa                                                                                    >  1:53419/1‑143 (MQ=255)

                                                         gggAAAAAATGCTGCTCGGTGTCTTTGTGCTGGCGCTGCTGGGCTGGATTTTCAGTAAGTCTCTGGGGGTTGATGAATCCACCTTGGCAATCGTTGTTATGGCAACCATGCTGCTGCTGGGTATCGTTACCTGGGAAGACGTg                                                                              <  1:546016/141‑1 (MQ=255)

                                                         gagAAAAAATGCTGCTCGGTGTCTTTGTGCTGGCGCTGCTGGGCTGGATTATCAGTAAGGCTCTGGGGGTTGATGAATCCACCTTGGCAATCGTTGTTATTGCAACCATGAGGCTGCTGGGTATCGTTACATGGGAAGACGTg                                                                              >  2:325401/3‑143 (MQ=255)

                                                          cgAAAAAATGCTGCTCGGTGTCTTTGTGCTGGCGCTGCTGGGCTGGATTTTCAGCTAGTTAAGCTGTGTTGATGAATCCACCTTGGCAATCGTTGTTATGGCAACCATGCTGCTGCTGGGTATCGTTACCTGGGAAGACGTgg                                                                             <  1:582196/143‑1 (MQ=255)

                                                             aaaaaTGCTGCTCGGTGTCTTTGTGCTGGCGCTGCTGGGCTGGATTTTCAGTAAGTCTCTGGGGGTTGATGAATCCACCGTGGCAATCGTTGTTATGGCAACCATGCTGCTGCTGGGTATCGTTACCTGGGAAGACGTGGtga                                                                          >  1:604116/1‑141 (MQ=255)

                                                                aaggctgccCGGTGTCGTTGGGCGGGCGCGGCTGGGCTGGATTTTCAGTAAGTCTCTGGGGGTTGATGAATCCACCGTGGCAATCGTTGTTATGGCAACCATGCTGCTGCTGGGTATCGTTACCTGGGAAGACGTGGTTaaaa                                                                       <  2:604116/140‑1 (MQ=255)

                                                                   gctgctCGGTGTCTTTGTGCTGGCGCTGCTGGGCTGGATTTTCAGTAAGTCTCTGGGGGTTGATGAATCCACCTTGGCAATCGTTGTTATGGCAACCATGCTGCTGCTGGGTATCGTTACCTGGGAAGACGTGGCTCAAAATa                                                                    >  2:749403/1‑143 (MQ=255)

                                                                     tgctCGGTGTCTTTGTGCTGGCGCTGCTGGGCTGGATTTTCAGTAAGTCTCTGGGGGTTGATGGATCCACCTTGGCAATCGTTGTTATGGCAACCATGCTGCTGCTGGGTATCGTTACCTGGGCAGACGTGGTTAAAAATaaa                                                                  >  2:788498/1‑143 (MQ=255)

                                                                                tttGTGCTGGCGCTGCTGGGCTGGATTTTCAGTAAGTCTCTGGGGGTTGATGAATCCACCTTGGCAGTCGTTGTTATGGCAACCATGCTGCTGCTGGGTATCGTTAACTGGGAAGACGTGGTTAAAAATAAAGGCGGCTGGaa                                                       >  1:68663/1‑143 (MQ=255)

                                                                                 ttGTGCTGGCGCTGCTGGGGTGGATTTTCAGTAAGTCGCTGGGGGTTGATGAATCCACCGTGGCAATAGTTGTTAGGGCAACCATGCTGCTGCTGGGTATCGTTACCTGGGAAGACGTGGTTAAAAATAAAGGCGGCTGGAAt                                                      <  2:690123/143‑1 (MQ=255)

                                                                                           gctgctGGGCTGGATTTTCAGTAAGTCTCTGGGGGTTGATGAATCCACCTTGGCAATCCTTGTTATGGCAACCCTGCTGCTGCTGGGTATCGTTGCCTTGGAAGACGTGGTTAAAAATAAAGGAGGCTGGAATACCTTAAtat                                            >  1:380797/1‑141 (MQ=255)

                                                                                                    ctggATTTTCAGTAAGTCTCTGGGGGTTGATGAATCCACCTTGGCAATCGTTGTTATGGCAACCATGGTGCTGCTGGGTATCGTTACCTGGGAAGACGTGGTTAAAAATAAAGGCGGCTGGATTACCTTTGTCTGTTAcggcg                                   >  1:281558/1‑143 (MQ=255)

                                                                                                    ctggATTTGCAGTAAGTCTCCGGGGGTTGATGAAGCCACCTTGGCAATCGTTGTTATGGCAACCATGCTGCTGCTGGGTATCGTTACCTGGGAAGTCGTGGTTAAAAATAAAGGCGGCTGGAATACCTTAATCTGGTAcggcg                                   <  1:763585/143‑1 (MQ=255)

                                                                                                     tggATTTTCAGTAAGTCTCTGGGGGTTGATGAATCCACCGTGGCAATCGTTGTTATGGCAACCATGCTGCTGCTGGGTATCGTTACCTGGGACGACGTGGGTAAAAATAAAGGCGGCTGGAATACCTTAATCTGGTCcggcgg                                  >  2:449428/1‑143 (MQ=255)

                                                                                                                tAAGTCTCTGGGGGTTGATGAATCCACCTTGGCAATCGTTGTTATGGCAACCATGCTGCTGCTGGGTATCGTTACCTGGGAAGACGTGGTTAAAAATAAAGGCGGCTGGAATACCTTAATCTGGTACGGCGGTATTATCGGCt                       >  1:757726/1‑143 (MQ=255)

                                                                                                                       ctGGGGGTTGATGAATCCACCTTGGCAATCGTTGTTATGGCAACCATGCTGCTGCTGGGTATCGTTACCTGGGAAGACGTGGTTAAAAATAAAGGCGGCTGGAATACCTTAATCTGGTACGGCGGTATTATCGGCTTAAGCTc                <  2:657801/143‑1 (MQ=255)

                                                                                                                        tGGGGGTTGCTGACTGCAGGTTGGCAATCGTTGTTATGGCAGCCATGCTGCTGCGGGGTATCGTTACCTGGGAAGGCGTGGTTAAAAATAAAGGCGGCTGGAATACCTTAATCTGGTACGGCGGTAGTATCGGCTTAAGCTcc               <  2:346127/143‑1 (MQ=255)

                                                                                                                        tGGGGGTTGATGACTCCACCTTGGCTATCGTTGTTATGGCAACCATGCTGCTGCTGGGTATCGTTACCTGGGAAGACGTGGTTAAAAATAAAGGCGGCTGGAATACCTTAATCTGGTACGGCGGTATTATCGGCTTAAGCTcc               <  1:631064/143‑1 (MQ=255)

                                                                                                                             gTTGATGAATCCACCATGGCAAACGATGTTATGGCAACGATGCTGCGGCTGGGTATCGTTACCTGGGAAGACGTGGTTAAAAATAAAGGCGGCTGGAATACCTTAATCTGGTACGGCGGTATTATCGGCTTAAGCTCCttatt          <  1:120180/143‑1 (MQ=255)

                                                                                                                                     aTCCACCTTGGCAATCGTTGTTATGGCAACCATGCTGCTGCTGGGTATCGTTACCTGGGAAGACGTGGTTAAAAATAAAGGCGGCTGGAATACCTTAATCTGGTACGGCGCTATTATCGGCTGAAGCTCCTTATTATCGAAAg  <  2:416614/143‑1 (MQ=255)

TGGATAACAAAACCATCGCTAAAGCGGGCCTTGCCGAACTAGGACCGATGAAAATCCGCGAAAAAATGCTGCTCGGTGTCTTTGTGCTGGCGCTGCTGGGCTGGATTTTCAGTAAGTCTCTGGGGGTTGATGAATCCACCGTGGCAATCGTTGTTATGGCAACCATGCTGCTGCTGGGTATCGTTACCTGGGAAGACGTGGTTAAAAATAAAGGCGGCTGGAATACCTTAATCTGGTACGGCGGTATTATCGGCTTAAGCTCCTTATTATCGAAAG  >  NC_000913/802638‑802913

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 8 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A