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
A12 F1 I2 R1	766	55.6	2631458	94.7%	2491990	109.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,737,495	G→A	114 (TAG→TAA)	raiA →	cold shock protein associated with 30S ribosomal subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,737,495	0	G	A	100.0%	167.5 / NA	52	114 (TAG→TAA)	raiA	cold shock protein associated with 30S ribosomal subunit
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (24/28); total (24/28)

ATGTACACCGCAATTAACGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAGTCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGAAACAAACATGAAACACATACCGTTTTTCTTCGCATT  >  NC_000913/2737361‑2737627

atGTACACCGCAATTAACGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCt                                                                                                                                  <  2:448306/139‑1 (MQ=255)

  gTACACCGCAATTAACGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCttt                                                                                                                                <  1:1059555/139‑1 (MQ=255)

  gTACACCGCAATTAACGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCttt                                                                                                                                <  1:1251219/139‑1 (MQ=255)

  gTACACCGCAATTAACGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCttt                                                                                                                                <  2:1175603/139‑1 (MQ=255)

       ccGCAATTAACGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATAtt                                                                                                                           >  1:704171/1‑139 (MQ=255)

        cGCAATTAACGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCttt                                                                                                                                >  1:121431/1‑133 (MQ=255)

        cGCAATTAACGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCttt                                                                                                                                <  2:121431/133‑1 (MQ=255)

          cAATTAACGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCCACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAg                                                                                                                        >  2:474687/1‑139 (MQ=255)

          cAATTAACGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAg                                                                                                                        >  1:435823/1‑139 (MQ=255)

                aCGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCttt                                                                                                                                >  2:649385/1‑125 (MQ=255)

                aCGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCttt                                                                                                                                <  1:649385/125‑1 (MQ=255)

                 cGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCg                                                                                                                 <  2:247236/139‑1 (MQ=255)

                     ttGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATAtt                                                                                                                           <  2:986412/125‑1 (MQ=255)

                     ttGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATAtt                                                                                                                           >  1:986412/1‑125 (MQ=255)

                     ttGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCaa                                                                                                             >  2:601177/1‑139 (MQ=255)

                                gCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGCATCGCCAACGCGCCTTCgg                                                                                                  >  1:117773/1‑139 (MQ=255)

                                      aCGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGt                                                                                            <  1:356333/139‑1 (MQ=255)

                                                aaTAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATC‑GTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGAc                                                                                 <  2:693713/139‑1 (MQ=255)

                                                 aTAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGAc                                                                                 <  2:435823/139‑1 (MQ=255)

                                                 aTAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGAc                                                                                 <  2:378064/139‑1 (MQ=255)

                                                            cacaAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAAc                                                                      >  1:469256/1‑139 (MQ=255)

                                                                aaGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTa                                                                  >  1:168406/1‑139 (MQ=255)

                                                                 aGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTAc                                                                 <  2:168406/139‑1 (MQ=255)

                                                                   gCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACgg                                                               <  2:469256/139‑1 (MQ=255)

                                                                    cGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACggg                                                              <  1:491592/139‑1 (MQ=255)

                                                                      aaGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGgta                                                            <  1:601177/139‑1 (MQ=255)

                                                                           cgtcgtGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGgtactgta                                                       >  2:616471/1‑139 (MQ=255)

                                                                             tcgtGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGAc                                                                                 <  1:866393/111‑1 (MQ=255)

                                                                             tcgtGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAATAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGAc                                                                                 >  2:866393/1‑111 (MQ=255)

                                                                                tGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTaaa                                                  >  1:39846/1‑139 (MQ=255)

                                                                                 gCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTTAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACggg                                                              <  1:699315/126‑1 (MQ=255)

                                                                                 gCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACggg                                                              >  2:699315/1‑126 (MQ=255)

                                                                                          tCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAg                                        >  1:712003/1‑139 (MQ=255)

                                                                                             gTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGaa                                     >  2:754307/1‑139 (MQ=255)

                                                                                              tGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGaaa                                    <  2:704171/139‑1 (MQ=255)

                                                                                                aaaGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGaaaca                                  <  2:39846/139‑1 (MQ=255)

                                                                                                 aaGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGaaacaa                                 <  1:474687/139‑1 (MQ=255)

                                                                                                  aGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACgg                                                               <  1:600753/108‑1 (MQ=255)

                                                                                                  aGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACgg                                                               >  2:600753/1‑108 (MQ=255)

                                                                                                     cGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTaa                                         <  1:206575/127‑1 (MQ=255)

                                                                                                     cGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTaa                                         >  2:206575/1‑127 (MQ=255)

                                                                                                     cGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGAAACAAACAt                             <  2:76163/139‑1 (MQ=255)

                                                                                                      gCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACggg                                                              >  2:995623/1‑105 (MQ=255)

                                                                                                      gCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACggg                                                              <  1:995623/105‑1 (MQ=255)

                                                                                                      gCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGAAACAAACATg                            >  2:883525/1‑139 (MQ=255)

                                                                                                        cAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGaaac                                   >  2:680670/1‑130 (MQ=255)

                                                                                                        cAACTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGaaac                                   <  1:680670/130‑1 (MQ=255)

                                                                                                         aaCTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGAAACAAACATGaaa                         <  1:616471/139‑1 (MQ=255)

                                                                                                           cTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGAc                                                                                 >  2:127170/1‑81 (MQ=255)

                                                                                                           cTTCGTCGAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGAc                                                                                 <  1:127170/81‑1 (MQ=255)

                                                                                                                tcgAAGAAGTTGAAGAAGAGTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGAAACAAACATGAAACACATAc                  >  2:317294/1‑139 (MQ=255)

                                                                                                                                agagTAATCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGAAACAAACATGAAACACATACCGTTTTTCTTCGCAtt  >  1:42482/1‑139 (MQ=255)

                                                                                                                                  agtaatCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAAc                                                                      <  1:749842/69‑1 (MQ=255)

                                                                                                                                  agtaatCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAAc                                                                      >  2:749842/1‑69 (MQ=255)

ATGTACACCGCAATTAACGAATTGATCAACAAGCTGGAACGGCAGCTCAATAAACTGCAGCACAAAGGCGAAGCACGTCGTGCCGCAACATCGGTGAAAGACGCCAACTTCGTCGAAGAAGTTGAAGAAGAGTAGTCCTTTATATTGAGTGTATCGCCAACGCGCCTTCGGGCGCGTTTTTTGTTGACAGCGTGAAAACAGTACGGGTACTGTACTAAAGTCACTTAAGGAAACAAACATGAAACACATACCGTTTTTCTTCGCATT  >  NC_000913/2737361‑2737627

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `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