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
A2 F1 I1 R1	748	32.0	1685426	92.6%	1560704	103.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	572,454	C→T	C29C (TGC→TGT)	ylcH →	uncharacterized protein, DLP12 prophage

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	572,454	0	C	T	100.0%	71.4 / NA	23	C29C (TGC→TGT)	ylcH	uncharacterized protein, DLP12 prophage
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (10/13); total (10/13)

CCGGAGCCTGAACAACTCCGGTGACTTCTGCGCTAAACGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGCGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGCCTTATCTGGAGGAGGGCAAATGCTTTCGCATGGTGCTTAAACC  >  NC_000913/572320‑572578

ccGGAGCCTGAACAACTCCGGTGACTTCTGCGCTAAACGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAg                                                                                                                          <  2:209992/139‑1 (MQ=255)

                        cTTCTGCGCTAAACGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGa                                                                                                  <  2:714895/139‑1 (MQ=255)

                             gcgcTAAACGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCa                                                                                             <  2:377684/139‑1 (MQ=255)

                             gcgcTAAACGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCa                                                                                             <  2:314028/139‑1 (MQ=255)

                                   aaCGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTCCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAgggg                                                                                                                       >  1:345973/1‑107 (MQ=255)

                                   aaCGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTCCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAgggg                                                                                                                       <  2:345973/107‑1 (MQ=255)

                                                        aTACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCg                                                                  >  2:446429/1‑139 (MQ=255)

                                                                  aaCTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGaa                                                                                                              <  1:594009/85‑1 (MQ=255)

                                                                  aaCTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCCTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGaa                                                                                                              >  2:594009/1‑85 (MQ=255)

                                                                   aCTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGG‑AACTTCACCGCTATCGGTCGGc                                                      <  1:392863/139‑1 (MQ=255)

                                                                        cttctCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGAt                                                  >  2:4045/1‑139 (MQ=255)

                                                                              ccTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGcc                                            <  1:4045/139‑1 (MQ=255)

                                                                                         gCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGCCTTATCTggagg                                 >  1:81214/1‑139 (MQ=255)

                                                                                                     cTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACg                                                                                                <  1:200858/64‑1 (MQ=255)

                                                                                                     cTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACg                                                                                                >  2:200858/1‑64 (MQ=255)

                                                                                                          aTTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCa                                                                                             <  2:743006/62‑1 (MQ=255)

                                                                                                          aTTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCa                                                                                             >  1:743006/1‑62 (MQ=255)

                                                                                                            tCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGCCTTATCTGGAGGAGGGCAAATGCTTTCGCAt              <  1:520913/139‑1 (MQ=255)

                                                                                                                tGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGCCTTATCTGGAGGAGGGCAAATGCTTTCGCATg             <  1:225412/136‑1 (MQ=255)

                                                                                                                tGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGCCTTATCTGGAGGAGGGCAAATGCTTTCGCATg             >  2:225412/1‑136 (MQ=255)

                                                                                                                       aGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGCCTTATCTGGAGGAGGGCAAATGCTTTCACATGGTGCTTAAAc   >  1:8361/1‑139 (MQ=255)

                                                                                                                        gCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGCCTTATCTGGAGGAGGGCAAATGCTTTCACATGGTGCTTAAAcc  <  2:8361/139‑1 (MQ=255)

                                                                                                                        gCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGCCTTATATGGAGGAGGGAAAATGCTTTCGCATGGTGCTTAAAcc  >  2:533720/1‑139 (MQ=255)

CCGGAGCCTGAACAACTCCGGTGACTTCTGCGCTAAACGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGCGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGCCTTATCTGGAGGAGGGCAAATGCTTTCGCATGGTGCTTAAACC  >  NC_000913/572320‑572578

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A