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
A13 F1 I2 R1	762	35.5	1545288	95.5%	1475750	117.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	571,444	G→A	184 (TAG→TAA)	ybcL →	inactive polymorphonuclear leukocyte migration suppressor, DLP12 prophage, UPF0098 family secreted protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	571,444	0	G	A	100.0%	128.6 / NA	41	184 (TAG→TAA)	ybcL	inactive polymorphonuclear leukocyte migration suppressor, DLP12 prophage, UPF0098 family secreted protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (18/23); total (18/23)

ACCAGTTTAAAGTATGGGCTCTAAAAACTGAAAAGATTCCTGTAGATTCTAACTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAGGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATGAGATTCATAGGGTTAAGCCTCTTATGCCAGCTTTGTGTCGTATCCGTCAGGGAAAGAAAGTTA  >  NC_000913/571308‑571577

aCCAGTTTAAAGTATGGGCTCTAAAAACTGAAAAGATTCCTGTAGATTCTAACTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAagg                                                                                                                                     >  2:212846/1‑139 (MQ=255)

aCCAGTTTAAAGTATGGGCTCTAAAAACTGAAAAGATTCCTGTAGATTCTAACTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAagg                                                                                                                                     <  2:17766/139‑1 (MQ=255)

 ccAGTTTAAAGTATGGGCTCTAAAAACTGAAAAGATTCCTGTAGATTCTAACTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGt                                                                                                                                    >  1:33979/1‑139 (MQ=255)

    gTTTAAAGTATGGGCTCTAAAAACTGAAAAGATTCCTGTAGATTCTAACTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTgag                                                                                                                                 >  1:215003/1‑139 (MQ=255)

     tttAAAGTATGGGCTCTAAAAACTGAAAAGATTCCTGTAGATTCTAACTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTgaga                                                                                                                                >  2:654285/1‑139 (MQ=255)

       tAAAGTATGGGCTCTAAAAACTGAAAAGATTCCTGTAGATTCTAACTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGt                                                                                                                              <  2:178609/139‑1 (MQ=255)

          aGTATGGGCTCTAAAAACTGAAAAGATTCCTGTAGATTCTAACTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATg                                                                                                                           <  2:33979/139‑1 (MQ=255)

          aGTATGGGCTCTAAAAACTGAAAAGATTCCTGTAGATTCTAACTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATg                                                                                                                           <  1:427512/139‑1 (MQ=255)

              tGGGCTCTAAAAACTGAAAAGATTCCTGTAGATTCTAACTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTgg                                                                                                                       >  1:50236/1‑139 (MQ=255)

                      aaaaaCTGAAAAGATTCCTGTAGATTCTAACTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGt                                                                                                               <  1:212846/139‑1 (MQ=255)

                          aCTGAAAAGATTCCTGTAGATTCTAACTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGa                                                                                                           <  1:128383/139‑1 (MQ=255)

                          aCTGAAAAGATTCCTGTAGATTCTAACTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGa                                                                                                           <  1:406864/139‑1 (MQ=255)

                            tGAAAAGATTCCTGTAGATTCTAACTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACt                                                                                                         <  2:465098/139‑1 (MQ=255)

                            tGAAAAGATTCCTGTAGATTCTAACTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACt                                                                                                         <  2:298422/139‑1 (MQ=255)

                            tGAAAAGATTCCTGTAGATTCTAACTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACt                                                                                                         <  2:249412/139‑1 (MQ=255)

                                               tCTAACTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGaaa                                                                                      >  1:5691/1‑139 (MQ=255)

                                                 tAACTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATa                                                                                    >  1:455479/1‑139 (MQ=255)

                                                   aCTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACg                                                                                  <  2:5691/139‑1 (MQ=255)

                                                            gAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATaa                                                                         <  2:654566/139‑1 (MQ=255)

                                                                    gTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATg                                                                 <  2:420238/139‑1 (MQ=255)

                                                                      tGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATgag                                                               <  2:215003/139‑1 (MQ=255)

                                                                       ggTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATgaga                                                              >  1:246059/1‑139 (MQ=255)

                                                                         ttATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATGAGAtt                                                            >  1:354198/1‑139 (MQ=255)

                                                                          tataTGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCa                                                                            >  2:524071/1‑122 (MQ=255)

                                                                          tataTGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCa                                                                            <  1:524071/122‑1 (MQ=255)

                                                                            tatGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCCGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAATAAATACGGATGCATAAACATCATGAGATTCAt                                                         <  2:220059/139‑1 (MQ=255)

                                                                            tatGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATGAGATTCAt                                                         <  2:354198/139‑1 (MQ=255)

                                                                            tatGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATGAGATTCAt                                                         >  1:489328/1‑139 (MQ=255)

                                                                               gCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATGAGATTCATAgg                                                      >  1:293869/1‑139 (MQ=255)

                                                                                  tAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATGAGATTCATAGGGtt                                                   <  2:246059/139‑1 (MQ=255)

                                                                                        taataaAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATGAGATTCATAGGGTTAAGCct                                             >  2:596927/1‑139 (MQ=255)

                                                                                         aataaAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATGAGATTCATAGGGTTAAGCctc                                            <  1:654285/139‑1 (MQ=255)

                                                                                                tCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATGAGATTCATAGGGTTAAGCctct                                           >  2:772371/1‑133 (MQ=255)

                                                                                                tCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATGAGATTCATAGGGTTAAGCctct                                           <  1:772371/133‑1 (MQ=255)

                                                                                                      ccGCTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAATACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATGAGATTCATAGGGTTAAGCCTCTTATGCCAGCttt                               <  2:489328/139‑1 (MQ=255)

                                                                                                         cTGAGATAACACCAGTTTATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATGAGATTCATAGGGTTAAGCCTCTTATGCCAGCTTtgtg                            >  2:112566/1‑139 (MQ=255)

                                                                                                                        tttATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGt                                                                                                               <  2:583345/41‑1 (MQ=255)

                                                                                                                        tttATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGt                                                                                                               >  1:583345/1‑41 (MQ=255)

                                                                                                                        tttATGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATGAGATTCATAGGGTTAAGCCTCTTATGCCAGCTTTGTGTCGTATCCGTCAggg             >  2:22393/1‑139 (MQ=255)

                                                                                                                           aTGAGATAAAGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATGAGATTCATAGGGTTAAGCCTCTTATGCCAGCTTTGTGTCGTATCCGTCAGGgaaa          <  1:596927/139‑1 (MQ=255)

                                                                                                                                  aaaGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATGAGATTCATAGGGTTAAGCCTCTTATGCCAGCTTTGTGTCGTATCCGTCAGGGAAAGAAAGtt   >  2:592186/1‑139 (MQ=255)

                                                                                                                                  aaaGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATGAGATTCATAGGGTTAAGCCTCTTATGCCAGCTTTGTGTCGTATCCGTCAGGGAAAGAAAGtt   >  1:166727/1‑139 (MQ=255)

                                                                                                                                   aaGTAAGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGGTCGAAGAAATACGGATGCATAAACATCATGAGATTCATAGGGTTAAGCCTCTTATGCCAGCTTTGTGTCGTATCCGTCAGGGAAAGAAAGTTa  <  2:304252/139‑1 (MQ=255)

ACCAGTTTAAAGTATGGGCTCTAAAAACTGAAAAGATTCCTGTAGATTCTAACTCCAGCGGAGCGTTAGTTGGTTATATGCTTAATGCTAATAAAATCGCAACCGCTGAGATAACACCAGTTTATGAGATAAAGTAGGGTGAGAGTATGCTGGCAAGAGGTAAGACTAACTTAAAGATCGAAGAAATACGGATGCATAAACATCATGAGATTCATAGGGTTAAGCCTCTTATGCCAGCTTTGTGTCGTATCCGTCAGGGAAAGAAAGTTA  >  NC_000913/571308‑571577

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A