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
A10 F1 I2 R1	757	38.1	1607544	96.5%	1551279	117.2

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%	111.5 / NA	35	C29C (TGC→TGT)	ylcH	uncharacterized protein, DLP12 prophage
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (18/17); total (18/17)

CCGGAGCCTGAACAACTCCGGTGACTTCTGCGCTAAACGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGCGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGCCTTATCTGGAGGAGGGCAAATGCTTTCGCATGGTGCTTAAAC  >  NC_000913/572320‑572577

ccGGAGCCTGAACAACTCCGGTGACTTCTGCGCTAAACGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAg                                                                                                                         >  1:93730/1‑139 (MQ=255)

ccGGAGCCTGAACAACTCCGGTGACTTCTGCGCTAAACGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAg                                                                                                                         >  2:92941/1‑139 (MQ=255)

 cGGAGCCTGAACAACTCCGGTGACTTCTGCGCTAAACGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAgg                                                                                                                        >  2:634366/1‑139 (MQ=255)

 cGGAGCCTGAACAACTCCGGTGACTTCTGCGCTAAACGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAgg                                                                                                                        >  2:83001/1‑139 (MQ=255)

  ggAGCCTGAACAACTCCGGTGACTTCTGCGCTAAACGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAggg                                                                                                                       <  1:400139/139‑1 (MQ=255)

  ggAGCCTGAACAACTCCGGTGACTTCTGCGCTAAACGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAggg                                                                                                                       <  2:93730/139‑1 (MQ=255)

              acTCCGGTGACTTCTGCGCTAAACGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAAcc                                                                                                           <  2:405293/139‑1 (MQ=255)

                    gTGACTTCTGCGCTAAACGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTcac                                                                                                     >  2:376679/1‑139 (MQ=255)

                       aCTTCTGCGCTAAACGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAg                                                                                                  >  2:797123/1‑139 (MQ=255)

                           cTGCGCTAAACGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACgg                                                                                              <  1:797123/139‑1 (MQ=255)

                             gcgcTAAACGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCa                                                                                            <  1:250746/139‑1 (MQ=255)

                                                              tCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTAtcg                                                           <  1:83001/139‑1 (MQ=255)

                                                                  aaCTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGa                                                                                                 <  1:491110/97‑1 (MQ=255)

                                                                  aaCTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTAtcggtcg                                                       >  1:215217/1‑139 (MQ=255)

                                                                  aaCTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTAtcggtcg                                                       >  2:136259/1‑139 (MQ=255)

                                                                  aaCTCTCATCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGa                                                                                                 >  2:491110/1‑97 (MQ=255)

                                                                              ccTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGcc                                           <  1:92941/139‑1 (MQ=255)

                                                                              ccTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGcc                                           <  2:241287/139‑1 (MQ=255)

                                                                              ccTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGcc                                           <  1:200573/139‑1 (MQ=255)

                                                                              ccTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGcc                                           <  1:634366/139‑1 (MQ=255)

                                                                              ccTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGcc                                           <  1:376679/139‑1 (MQ=255)

                                                                              ccTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGcc                                           <  1:136259/139‑1 (MQ=255)

                                                                                        tGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGAt                                                 <  1:355722/123‑1 (MQ=255)

                                                                                        tGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGAt                                                 >  2:355722/1‑123 (MQ=255)

                                                                                         gCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGCCTTATCTggagg                                >  1:273860/1‑139 (MQ=255)

                                                                                          cAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAACTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGCCTTATCTggagga                               >  2:426408/1‑139 (MQ=255)

                                                                                                  cACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCAc                                                                   >  2:281124/1‑95 (MQ=255)

                                                                                                  cACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCAc                                                                   <  1:281124/95‑1 (MQ=255)

                                                                                                  cACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGCCTTATCTGGAGGAGGGCAAAt                       >  2:260718/1‑139 (MQ=255)

                                                                                                       gCAATTCTTTGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGCCTTATCTGGAGGAGGGCAAATGCttt                  >  1:569372/1‑139 (MQ=255)

                                                                                                                tGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACACGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGc                                            <  2:728806/104‑1 (MQ=255)

                                                                                                                tGCATCTAGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACACGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGc                                            >  1:728806/1‑104 (MQ=255)

                                                                                                                       aGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGCCTTATCTGGAGGAGGGCAAATGCTTTCGCAt             >  1:44896/1‑128 (MQ=255)

                                                                                                                       aGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGCCTTATCTGGAGGAGGGCAAATGCTTTCGCAt             <  2:44896/128‑1 (MQ=255)

                                                                                                                       aGCGTTTGACCTCTGTGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGCCTTATCTGGAGGAGGGCAAATGCTTTCGCATGGTGCTTAAAc  >  1:286217/1‑139 (MQ=255)

CCGGAGCCTGAACAACTCCGGTGACTTCTGCGCTAAACGGGGACGTTTATGCGCACATACAATCCAAACTCTCTTCTCCCTTCACAGATGCAGAAATGCACCTGCAATTCTTTGCATCTAGCGTTTGACCTCTGCGGAGGGGAAGCGTGAACCTCTCACAAGACGGCATCAAATTACATCGCGGCAACTTCACCGCTATCGGTCGGCAGATCCAGCCTTATCTGGAGGAGGGCAAATGCTTTCGCATGGTGCTTAAAC  >  NC_000913/572320‑572577

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A